Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A13
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: 109233746
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2708888 characters in sequence are not A, C, G, or T
File 81 of 332
Found at i:25310871 original size:23 final size:23
Alignment explanation
Indices: 25310833--25310919 Score: 99
Period size: 23 Copynumber: 3.8 Consensus size: 23
25310823 AAGCTCTACT
25310833 GAGCTGAA-CAGTAAGCTCTTTC
1 GAGCTGAATCAGTAAGCTCTTTC
**
25310855 GAGCTGAATCAGTAAGCTCCAAT-
1 GAGCTGAATCAGTAAGCT-CTTTC
*
25310878 GAGCTGAAAT-AGTAAGCTCTTAC
1 GAGCTG-AATCAGTAAGCTCTTTC
*
25310901 GAGTTGAATCAGTAAGCTC
1 GAGCTGAATCAGTAAGCTC
25310920 ATACAAGCTA
Statistics
Matches: 54, Mismatches: 6, Indels: 9
0.78 0.09 0.13
Matches are distributed among these distances:
22 12 0.22
23 37 0.69
24 5 0.09
ACGTcount: A:0.32, C:0.20, G:0.23, T:0.25
Consensus pattern (23 bp):
GAGCTGAATCAGTAAGCTCTTTC
Found at i:25310885 original size:45 final size:46
Alignment explanation
Indices: 25310821--25310919 Score: 146
Period size: 46 Copynumber: 2.2 Consensus size: 46
25310811 GCTGAAAATG
* * *
25310821 GTAAGCTCTACTGAGCTG-AACAGTAAGCTCTTTCGAGCTGAATCA
1 GTAAGCTCCAATGAGCTGAAACAGTAAGCTCTTACGAGCTGAATCA
* *
25310866 GTAAGCTCCAATGAGCTGAAATAGTAAGCTCTTACGAGTTGAATCA
1 GTAAGCTCCAATGAGCTGAAACAGTAAGCTCTTACGAGCTGAATCA
25310912 GTAAGCTC
1 GTAAGCTC
25310920 ATACAAGCTA
Statistics
Matches: 48, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
45 16 0.33
46 32 0.67
ACGTcount: A:0.31, C:0.20, G:0.22, T:0.26
Consensus pattern (46 bp):
GTAAGCTCCAATGAGCTGAAACAGTAAGCTCTTACGAGCTGAATCA
Found at i:25315308 original size:33 final size:33
Alignment explanation
Indices: 25315271--25315338 Score: 127
Period size: 33 Copynumber: 2.1 Consensus size: 33
25315261 CCTTAGTGCG
*
25315271 TCGTTATTCGCACAGCTAACTTAAATGAATCAA
1 TCGTTATTCACACAGCTAACTTAAATGAATCAA
25315304 TCGTTATTCACACAGCTAACTTAAATGAATCAA
1 TCGTTATTCACACAGCTAACTTAAATGAATCAA
25315337 TC
1 TC
25315339 ACCTTTATGA
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.37, C:0.22, G:0.10, T:0.31
Consensus pattern (33 bp):
TCGTTATTCACACAGCTAACTTAAATGAATCAA
Found at i:25321848 original size:36 final size:37
Alignment explanation
Indices: 25321808--25321883 Score: 93
Period size: 36 Copynumber: 2.1 Consensus size: 37
25321798 TTTTAAAATA
*
25321808 AAATTTATAAGTCGAG-GAACTATA-TCAAATTTTGAT
1 AAATTTAAAAGTCGAGAG-ACTATATTCAAATTTTGAT
* * *
25321844 AAATTTAAAAGTGGATAGACTATATTGAAATTTTGAT
1 AAATTTAAAAGTCGAGAGACTATATTCAAATTTTGAT
25321881 AAA
1 AAA
25321884 CTTTCAGGGA
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
36 19 0.56
37 15 0.44
ACGTcount: A:0.45, C:0.05, G:0.14, T:0.36
Consensus pattern (37 bp):
AAATTTAAAAGTCGAGAGACTATATTCAAATTTTGAT
Found at i:25322252 original size:19 final size:19
Alignment explanation
Indices: 25322230--25322283 Score: 51
Period size: 19 Copynumber: 2.9 Consensus size: 19
25322220 TAAATTTTGG
25322230 TATTTCTCTTAATTTTTTA
1 TATTTCTCTTAATTTTTTA
25322249 TATTTTCTCATT--TTTTTTA
1 TA-TTTCTC-TTAATTTTTTA
* *
25322268 TA-TCCTCGTAATTTTT
1 TATTTCTCTTAATTTTT
25322284 ACTATTCTAT
Statistics
Matches: 29, Mismatches: 2, Indels: 9
0.73 0.05 0.22
Matches are distributed among these distances:
16 1 0.03
17 4 0.14
18 5 0.17
19 11 0.38
20 6 0.21
21 2 0.07
ACGTcount: A:0.19, C:0.13, G:0.02, T:0.67
Consensus pattern (19 bp):
TATTTCTCTTAATTTTTTA
Found at i:25324100 original size:20 final size:19
Alignment explanation
Indices: 25324059--25324100 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
25324049 CATAAAAATT
*
25324059 AAAAAATATTAAAATTTAA
1 AAAAAATATTAAAACTTAA
* *
25324078 AAAAAATCTTAAAACTTAG
1 AAAAAATATTAAAACTTAA
25324097 AAAA
1 AAAA
25324101 CTATAAAAAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.67, C:0.05, G:0.02, T:0.26
Consensus pattern (19 bp):
AAAAAATATTAAAACTTAA
Found at i:25325676 original size:13 final size:13
Alignment explanation
Indices: 25325658--25325690 Score: 66
Period size: 13 Copynumber: 2.5 Consensus size: 13
25325648 TTTAATTCGC
25325658 CACACGGTCTAAG
1 CACACGGTCTAAG
25325671 CACACGGTCTAAG
1 CACACGGTCTAAG
25325684 CACACGG
1 CACACGG
25325691 GTGTGTGACT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.30, C:0.33, G:0.24, T:0.12
Consensus pattern (13 bp):
CACACGGTCTAAG
Found at i:25327978 original size:40 final size:40
Alignment explanation
Indices: 25327947--25328161 Score: 335
Period size: 40 Copynumber: 5.4 Consensus size: 40
25327937 CGCTCGAATA
*
25327947 CCTTCGGGACATAGCCCGGATA-TAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGA-ACTAGTAACTCGCACAAATG
*
25327987 CCTTTGGGACTTAGCCCGGAACTAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGAACTAGTAACTCGCACAAATG
25328027 CCTTCGGGACTTAGCCCGGAACTAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGAACTAGTAACTCGCACAAATG
*
25328067 CCTTCGGGACTTAGCCCGGATA-TGGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGA-ACTAGTAACTCGCACAAATG
* * * *
25328107 CCTTCGGGACTTAGCCCGAAACTAGTCACTAGCGCAAATG
1 CCTTCGGGACTTAGCCCGGAACTAGTAACTCGCACAAATG
25328147 CCTTCGGGACTTAGC
1 CCTTCGGGACTTAGC
25328162 TCGGTTATCA
Statistics
Matches: 163, Mismatches: 9, Indels: 6
0.92 0.05 0.03
Matches are distributed among these distances:
39 2 0.01
40 160 0.98
41 1 0.01
ACGTcount: A:0.27, C:0.29, G:0.23, T:0.21
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGAACTAGTAACTCGCACAAATG
Found at i:25328055 original size:80 final size:80
Alignment explanation
Indices: 25327908--25328161 Score: 336
Period size: 80 Copynumber: 3.2 Consensus size: 80
25327898 AAGCCAAGTA
* * * * * * *
25327908 CCTTCGGGATTTA-ACCGGATATA-TCTACTCGCTCGAATACCTTCGGGACATAGCCCGGATA-T
1 CCTTCGGGACTTAGCCCGGATATAGT-AACTCGCACAAATGCCTTCGGGACTTAGCCCGGA-ACT
25327970 AGTAACTCGCACAAATG
64 AGTAACTCGCACAAATG
*
25327987 CCTTTGGGACTTAGCCCGGA-ACTAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGAACTA
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGAACTA
25328051 GTAACTCGCACAAATG
65 GTAACTCGCACAAATG
* *
25328067 CCTTCGGGACTTAGCCCGGATATGGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGAAACTAG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGAACTAG
* * *
25328132 TCACTAGCGCAAATG
66 TAACTCGCACAAATG
25328147 CCTTCGGGACTTAGC
1 CCTTCGGGACTTAGC
25328162 TCGGTTATCA
Statistics
Matches: 156, Mismatches: 14, Indels: 9
0.87 0.08 0.05
Matches are distributed among these distances:
79 13 0.08
80 141 0.90
81 2 0.01
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.23
Consensus pattern (80 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGAACTAG
TAACTCGCACAAATG
Found at i:25336309 original size:40 final size:40
Alignment explanation
Indices: 25336265--25336443 Score: 263
Period size: 40 Copynumber: 4.5 Consensus size: 40
25336255 CACTCGAATA
*
25336265 CCTTCGGGACATAGCCCGGATA-TAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGA-ACTAGTAACTCGCACAAATG
*
25336305 CCTTCGGGACTTAGCCCGCAACTAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGAACTAGTAACTCGCACAAATG
*
25336345 CCTTCGGGACTTAGCCCGGATA-TGGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGA-ACTAGTAACTCGCACAAATG
* * *
25336385 CCTTCGGGACTTAGCCCGGAACTAGTCACTAGCGCAAATG
1 CCTTCGGGACTTAGCCCGGAACTAGTAACTCGCACAAATG
*
25336425 CCTTCAGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
25336444 TTATCATCCA
Statistics
Matches: 127, Mismatches: 9, Indels: 6
0.89 0.06 0.04
Matches are distributed among these distances:
39 2 0.02
40 124 0.98
41 1 0.01
ACGTcount: A:0.26, C:0.30, G:0.23, T:0.21
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGAACTAGTAACTCGCACAAATG
Found at i:25336360 original size:80 final size:80
Alignment explanation
Indices: 25336265--25336443 Score: 295
Period size: 80 Copynumber: 2.2 Consensus size: 80
25336255 CACTCGAATA
*
25336265 CCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGCAACTAG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGCAACTAG
*
25336330 TAACTCGCACAAATG
66 TAACTAGCACAAATG
* *
25336345 CCTTCGGGACTTAGCCCGGATATGGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGAACTAG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGCAACTAG
* *
25336410 TCACTAGCGCAAATG
66 TAACTAGCACAAATG
*
25336425 CCTTCAGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
25336444 TTATCATCCA
Statistics
Matches: 92, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
80 92 1.00
ACGTcount: A:0.26, C:0.30, G:0.23, T:0.21
Consensus pattern (80 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGCAACTAG
TAACTAGCACAAATG
Found at i:25342876 original size:29 final size:30
Alignment explanation
Indices: 25342829--25342896 Score: 84
Period size: 30 Copynumber: 2.3 Consensus size: 30
25342819 TGGCCCAAGA
* *
25342829 GTAAATACTCAAAATTTGAAGGATTAA-AGT
1 GTAAATA-TCAAAAGTTGAAGGACTAATAGT
*
25342859 GTAAATATGAAAAGTTGAAGGACTAATAGT
1 GTAAATATCAAAAGTTGAAGGACTAATAGT
*
25342889 GCAAATAT
1 GTAAATAT
25342897 TTTAAGGGTG
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
29 16 0.48
30 17 0.52
ACGTcount: A:0.47, C:0.06, G:0.19, T:0.28
Consensus pattern (30 bp):
GTAAATATCAAAAGTTGAAGGACTAATAGT
Found at i:25345368 original size:46 final size:46
Alignment explanation
Indices: 25345314--25345541 Score: 341
Period size: 46 Copynumber: 5.0 Consensus size: 46
25345304 AGTGTGCTCT
* * *
25345314 CTGATATGAAATGTGTAAGACCATGGTAGAAAGAAACCATGGCAGC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
*
25345360 CCGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
25345406 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
25345452 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * ** * * *
25345498 ATGA-AAGAAAATAAGTAAGACCATAGTTGAAAGACACTATGGCA
1 CTGATATG-AAATGTGTAAGACCATGGTTGAAAGATACCATGGCA
25345542 TCATGTCAAA
Statistics
Matches: 169, Mismatches: 12, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
45 2 0.01
46 167 0.99
ACGTcount: A:0.40, C:0.15, G:0.24, T:0.21
Consensus pattern (46 bp):
CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
Found at i:25348936 original size:20 final size:19
Alignment explanation
Indices: 25348906--25348951 Score: 74
Period size: 20 Copynumber: 2.4 Consensus size: 19
25348896 ATGATAGTTA
*
25348906 CAATGACATGTATGATATG
1 CAATGATATGTATGATATG
25348925 CAAATGATATGTATGATATG
1 C-AATGATATGTATGATATG
25348945 CAATGAT
1 CAATGAT
25348952 GTATTCATAA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
19 7 0.28
20 18 0.72
ACGTcount: A:0.39, C:0.09, G:0.20, T:0.33
Consensus pattern (19 bp):
CAATGATATGTATGATATG
Found at i:25349139 original size:23 final size:23
Alignment explanation
Indices: 25349001--25349142 Score: 150
Period size: 22 Copynumber: 6.2 Consensus size: 23
25348991 GCAGGAAGTG
25349001 TAAAAGGGCTTATGCCCAAGTTAT
1 TAAAAGGGCTTATGCCC-AGTTAT
* *
25349025 GATAAAGGGC-TATGCCCAATTAT
1 TA-AAAGGGCTTATGCCCAGTTAT
* * **
25349048 GATAAGGGCTTATGCTTAG-T-T
1 TAAAAGGGCTTATGCCCAGTTAT
25349069 TATAAAGGGCTTATGCCCTAGTTAT
1 TA-AAAGGGCTTATGCCC-AGTTAT
25349094 TAAAAGGGCTT-TGCCCAGTTAT
1 TAAAAGGGCTTATGCCCAGTTAT
25349116 TAAAAGGGCTT-TGCCCCAGTTAT
1 TAAAAGGGCTTATG-CCCAGTTAT
25349139 TAAA
1 TAAA
25349143 GAGGCTAGGC
Statistics
Matches: 101, Mismatches: 10, Indels: 15
0.80 0.08 0.12
Matches are distributed among these distances:
21 2 0.02
22 38 0.38
23 33 0.33
24 18 0.18
25 10 0.10
ACGTcount: A:0.30, C:0.16, G:0.22, T:0.32
Consensus pattern (23 bp):
TAAAAGGGCTTATGCCCAGTTAT
Found at i:25349143 original size:22 final size:22
Alignment explanation
Indices: 25349003--25349161 Score: 139
Period size: 23 Copynumber: 7.0 Consensus size: 22
25348993 AGGAAGTGTA
25349003 AAAGGGCTTATGCCCAAGTTATGAT
1 AAAGGGCTTATGCCC-AGTTAT--T
* *
25349028 AAAGGGC-TATGCCCAATTATG
1 AAAGGGCTTATGCCCAGTTATT
**
25349049 ATAAGGGCTTATGCTTAGTT-TAT
1 A-AAGGGCTTATGCCCAGTTAT-T
25349072 AAAGGGCTTATGCCCTAGTTATT
1 AAAGGGCTTATGCCC-AGTTATT
25349095 AAAAGGGCTT-TGCCCAGTTATT
1 -AAAGGGCTTATGCCCAGTTATT
25349117 AAAAGGGCTT-TGCCCCAGTTATT
1 -AAAGGGCTTATG-CCCAGTTATT
*
25349140 AAAGAGGC-TAGGCTCCAGTTAT
1 AAAG-GGCTTATGC-CCAGTTAT
25349162 ACGATAAAGC
Statistics
Matches: 115, Mismatches: 9, Indels: 22
0.79 0.06 0.15
Matches are distributed among these distances:
21 1 0.01
22 44 0.38
23 46 0.40
24 17 0.15
25 7 0.06
ACGTcount: A:0.29, C:0.17, G:0.23, T:0.31
Consensus pattern (22 bp):
AAAGGGCTTATGCCCAGTTATT
Found at i:25349158 original size:46 final size:46
Alignment explanation
Indices: 25349072--25349161 Score: 121
Period size: 45 Copynumber: 2.0 Consensus size: 46
25349062 CTTAGTTTAT
* **
25349072 AAAGGGCTTATGCCCTAGTTATTAAAAGGGCTTTGCCCAGTTATTA
1 AAAGGGCTTATGCCCCAGTTATTAAAAGGGCTAGGCCCAGTTATTA
25349118 AAAGGGCTT-TGCCCCAGTTATT-AAAGAGGCTAGGCTCCAGTTAT
1 AAAGGGCTTATGCCCCAGTTATTAAAAG-GGCTAGGC-CCAGTTAT
25349162 ACGATAAAGC
Statistics
Matches: 39, Mismatches: 3, Indels: 4
0.85 0.07 0.09
Matches are distributed among these distances:
44 4 0.10
45 18 0.46
46 17 0.44
ACGTcount: A:0.28, C:0.19, G:0.23, T:0.30
Consensus pattern (46 bp):
AAAGGGCTTATGCCCCAGTTATTAAAAGGGCTAGGCCCAGTTATTA
Found at i:25349391 original size:31 final size:31
Alignment explanation
Indices: 25349353--25349414 Score: 97
Period size: 31 Copynumber: 2.0 Consensus size: 31
25349343 CGTTTACAGT
*
25349353 AAGGCTTCGGCCCAGTAATATGAAGTATGAA
1 AAGGCTTCGGCCCAGTAATATGAAATATGAA
**
25349384 AAGGCTTCGGCCCAGTGTTATGAAATATGAA
1 AAGGCTTCGGCCCAGTAATATGAAATATGAA
25349415 GTGTGAAAAG
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.34, C:0.16, G:0.26, T:0.24
Consensus pattern (31 bp):
AAGGCTTCGGCCCAGTAATATGAAATATGAA
Found at i:25358047 original size:43 final size:40
Alignment explanation
Indices: 25357952--25358140 Score: 183
Period size: 40 Copynumber: 4.7 Consensus size: 40
25357942 GCTCCTCGGT
*
25357952 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
*
25357992 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAAAAGCAT-GCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGT--AA-C-TCGCA
*
25358035 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTAATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAA-CTCGCA
* * * * *
25358075 CAAATGCCTTC-GGATCTTAG-TCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCA
25358115 CAAA-GCCTTCGGGACTTTAGCCCGGA
1 CAAATGCCTTCGGGAC-TTAGCCCGGA
25358141 CATCATCAAA
Statistics
Matches: 125, Mismatches: 12, Indels: 23
0.78 0.08 0.14
Matches are distributed among these distances:
39 11 0.09
40 67 0.54
41 11 0.09
42 17 0.14
43 18 0.14
44 1 0.01
ACGTcount: A:0.27, C:0.26, G:0.23, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:25366788 original size:28 final size:28
Alignment explanation
Indices: 25366756--25366810 Score: 78
Period size: 28 Copynumber: 2.0 Consensus size: 28
25366746 TAGAAATTAA
25366756 TTATTATA-AATATATCTTA-AATTAAATT
1 TTATTATATAATA-AT-TTATAATTAAATT
25366784 TTATTATATAATAATTTATAATTAAAT
1 TTATTATATAATAATTTATAATTAAAT
25366811 AGAAATTTAA
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
27 3 0.12
28 18 0.72
29 4 0.16
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (28 bp):
TTATTATATAATAATTTATAATTAAATT
Found at i:25370188 original size:15 final size:15
Alignment explanation
Indices: 25370168--25370196 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
25370158 ATGCTTCACA
25370168 CACCGTGTTATCAAT
1 CACCGTGTTATCAAT
25370183 CACCGTGTTATCAA
1 CACCGTGTTATCAA
25370197 GCAACTAAAC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.28, C:0.28, G:0.14, T:0.31
Consensus pattern (15 bp):
CACCGTGTTATCAAT
Found at i:25373323 original size:49 final size:48
Alignment explanation
Indices: 25373270--25373495 Score: 153
Period size: 49 Copynumber: 4.8 Consensus size: 48
25373260 ACATCAATGT
*
25373270 TGATGCCATGTCCCAAACAGGTCTTACACTAACTTTCATACATCGAGGC
1 TGATGCCATGTCCCAAACAGGTCTTACACTAACTCTCATACAT-GAGGC
* * * * * ** * *
25373319 TGATGTCGTGTCCCAAACAAGTATTACAATGGCTCTCAT-CTATTAGTGT
1 TGATGCCATGTCCCAAACAGGTCTTACACTAACTCTCATAC-ATGAG-GC
* * * *
25373368 TGATACCATGTCCCAAATAGGTCTTACACTGACACTCA-ACA--A-GC
1 TGATGCCATGTCCCAAACAGGTCTTACACTAACTCTCATACATGAGGC
* * *
25373412 TGATGCCATGTCCCAGACAGGTCTTACACTAGCT-TGTATATC-TCGAGGC
1 TGATGCCATGTCCCAAACAGGTCTTACACTAACTCT-CATA-CAT-GAGGC
** * *
25373461 TGATG-CATGTCCCTGACATGTCTTACACTAGCTCT
1 TGATGCCATGTCCCAAACAGGTCTTACACTAACTCT
25373496 AGTCTCAATG
Statistics
Matches: 137, Mismatches: 29, Indels: 22
0.73 0.15 0.12
Matches are distributed among these distances:
43 1 0.01
44 30 0.22
45 1 0.01
46 2 0.01
48 31 0.23
49 72 0.53
ACGTcount: A:0.27, C:0.27, G:0.18, T:0.29
Consensus pattern (48 bp):
TGATGCCATGTCCCAAACAGGTCTTACACTAACTCTCATACATGAGGC
Found at i:25373525 original size:46 final size:48
Alignment explanation
Indices: 25373410--25373537 Score: 154
Period size: 46 Copynumber: 2.7 Consensus size: 48
25373400 CACTCAACAA
* * *
25373410 GCTGATGCCATGTCCCAGACAGGTCTTACACTAGCTTGTATATCTCGAG
1 GCTGATG-CATGTCCCAGACATGTCTTACACTAGCTTCTATATCTCAAG
* * *
25373459 GCTGATGCATGTCCCTGACATGTCTTACACTAGC-TCTA-GTCTCAAT
1 GCTGATGCATGTCCCAGACATGTCTTACACTAGCTTCTATATCTCAAG
*
25373505 G-TCGGTGCATGTCCCAGACATGTCTTACACTAG
1 GCT-GATGCATGTCCCAGACATGTCTTACACTAG
25373538 AACACATATC
Statistics
Matches: 70, Mismatches: 8, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
45 1 0.01
46 34 0.49
47 3 0.04
48 25 0.36
49 7 0.10
ACGTcount: A:0.22, C:0.27, G:0.21, T:0.30
Consensus pattern (48 bp):
GCTGATGCATGTCCCAGACATGTCTTACACTAGCTTCTATATCTCAAG
Found at i:25376955 original size:53 final size:54
Alignment explanation
Indices: 25376887--25377179 Score: 340
Period size: 55 Copynumber: 5.4 Consensus size: 54
25376877 CTTACCATTC
* * *
25376887 CCATGTCTTGACATGGTCTTACATGGTATCTTTGCCTTAT-GAACTCACCAATA
1 CCATGCCTTGACATGGTCTTACATGGTATCTTTGCCTTATAGAACTCATCAATG
* * * * *
25376940 CTATGCCTTGGCATGGTCTTACATGGGACCGTTT-CCTTATAGTAACTTATCAATG
1 CCATGCCTTGACATGGTCTTACATGGTATC-TTTGCCTTATAG-AACTCATCAATG
* * *
25376995 CCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTAT-GAACTCACCAATG
1 CCATGCCTTGACATGGTCTTACATGGTATCTTTGCCTTATAGAACTCATCAATG
* * * * *
25377048 CCATGCATTGGCATGGTCTTACATGGGACCTTTTCCTTATAGTAACTCATCAATG
1 CCATGCCTTGACATGGTCTTACATGGTATCTTTGCCTTATAG-AACTCATCAATG
* * * * *
25377103 CCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTATAGAACTTATCAATG
1 CCATGCCTTGACATGGTCTTACATGGTATCTTTGCCTTATAGAACTCATCAATG
*
25377157 CCATGCCTTGGCATGGTCTTACA
1 CCATGCCTTGACATGGTCTTACA
25377180 CGATATCCTT
Statistics
Matches: 198, Mismatches: 36, Indels: 11
0.81 0.15 0.04
Matches are distributed among these distances:
53 74 0.37
54 40 0.20
55 84 0.42
ACGTcount: A:0.23, C:0.24, G:0.17, T:0.35
Consensus pattern (54 bp):
CCATGCCTTGACATGGTCTTACATGGTATCTTTGCCTTATAGAACTCATCAATG
Found at i:25377064 original size:108 final size:108
Alignment explanation
Indices: 25376887--25377179 Score: 487
Period size: 108 Copynumber: 2.7 Consensus size: 108
25376877 CTTACCATTC
* * *
25376887 CCATGTCTTGACATGGTCTTACATGGTATCTTTGCCTTATGAACTCACCAATACTATGCCTTGGC
1 CCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATGAACTCACCAATGCCATGCCTTGGC
*
25376952 ATGGTCTTACATGGGACCGTTTCCTTATAGTAACTTATCAATG
66 ATGGTCTTACATGGGACCGTTTCCTTATAGTAACTCATCAATG
*
25376995 CCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATGAACTCACCAATGCCATGCATTGGC
1 CCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATGAACTCACCAATGCCATGCCTTGGC
*
25377060 ATGGTCTTACATGGGACCTTTTCCTTATAGTAACTCATCAATG
66 ATGGTCTTACATGGGACCGTTTCCTTATAGTAACTCATCAATG
* * * *
25377103 CCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTATAGAACTTATCAATGCCATGCCTTGG
1 CCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTAT-GAACTCACCAATGCCATGCCTTGG
25377168 CATGGTCTTACA
65 CATGGTCTTACA
25377180 CGATATCCTT
Statistics
Matches: 173, Mismatches: 11, Indels: 1
0.94 0.06 0.01
Matches are distributed among these distances:
108 140 0.81
109 33 0.19
ACGTcount: A:0.23, C:0.24, G:0.17, T:0.35
Consensus pattern (108 bp):
CCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATGAACTCACCAATGCCATGCCTTGGC
ATGGTCTTACATGGGACCGTTTCCTTATAGTAACTCATCAATG
Found at i:25381294 original size:39 final size:40
Alignment explanation
Indices: 25381251--25381345 Score: 106
Period size: 39 Copynumber: 2.5 Consensus size: 40
25381241 ACTAGCTCGA
* * * *
25381251 AGCCTGCGGGA-CTTTAGCCCGGACATATTTCCAGCACGT
1 AGCCTGCGGGACCTTAAGCCCAGACATAATTCCAGCACAT
* *
25381290 AGCCTGC-GGACCTTAAGTCCAGATATAATTCCAGCACAT
1 AGCCTGCGGGACCTTAAGCCCAGACATAATTCCAGCACAT
*
25381329 AGCCTGC-GGACCCTAAG
1 AGCCTGCGGGACCTTAAG
25381346 TCCGGATATA
Statistics
Matches: 48, Mismatches: 7, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
38 3 0.06
39 45 0.94
ACGTcount: A:0.25, C:0.31, G:0.23, T:0.21
Consensus pattern (40 bp):
AGCCTGCGGGACCTTAAGCCCAGACATAATTCCAGCACAT
Found at i:25381346 original size:39 final size:39
Alignment explanation
Indices: 25381279--25381355 Score: 127
Period size: 39 Copynumber: 2.0 Consensus size: 39
25381269 CCGGACATAT
* *
25381279 TTCCAGCACGTAGCCTGCGGACCTTAAGTCCAGATATAA
1 TTCCAGCACATAGCCTGCGGACCCTAAGTCCAGATATAA
*
25381318 TTCCAGCACATAGCCTGCGGACCCTAAGTCCGGATATA
1 TTCCAGCACATAGCCTGCGGACCCTAAGTCCAGATATA
25381356 CATCACTGAA
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
39 35 1.00
ACGTcount: A:0.27, C:0.30, G:0.21, T:0.22
Consensus pattern (39 bp):
TTCCAGCACATAGCCTGCGGACCCTAAGTCCAGATATAA
Found at i:25389346 original size:39 final size:40
Alignment explanation
Indices: 25389263--25389349 Score: 133
Period size: 39 Copynumber: 2.2 Consensus size: 40
25389253 GGACTTTAGC
* * *
25389263 CCGGACAT-ATTTCTAGCACGTAGCCTGCGGACCTTAAGT
1 CCGGATATAATTTCTAGCACATAGCCTGCGGACCCTAAGT
25389302 CCGGATATAATTTC-AGCACATAGCCTGCGGACCCTAAGT
1 CCGGATATAATTTCTAGCACATAGCCTGCGGACCCTAAGT
25389341 CCGGATATA
1 CCGGATATA
25389350 CATCACTGAA
Statistics
Matches: 44, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
39 39 0.89
40 5 0.11
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
CCGGATATAATTTCTAGCACATAGCCTGCGGACCCTAAGT
Found at i:25394781 original size:63 final size:64
Alignment explanation
Indices: 25394713--25394906 Score: 173
Period size: 63 Copynumber: 3.0 Consensus size: 64
25394703 TAAGATAATA
* *
25394713 ACTTTAATATTAAATTAATATAATATTTATCAAGATAAATATTAGATTAAATTTAATATTAAAT
1 ACTTTAATATTAAATTAATAAAATATTTATCAAGATAAATATTAAATTAAATTTAATATTAAAT
* * * * * * *
25394777 -C-TT--TATTAAAATAATAGAATGTTAATCTACAATATAAACATTAAATTAAATTAAATATTAA
1 ACTTTAATATTAAATTAATAAAATATT--TAT-CAAGATAAATATTAAATTAAATTTAATA-T--
25394838 TATAAT
60 TA-AAT
* * *
25394844 CACTTTAATATTAAATTAATAAAATA-CTATTAAGATAAGTATTAAATTAAATTTAATATTAAA
1 -ACTTTAATATTAAATTAATAAAATATTTATCAAGATAAATATTAAATTAAATTTAATATTAAA
25394907 CTATTAAAAT
Statistics
Matches: 100, Mismatches: 18, Indels: 24
0.70 0.13 0.17
Matches are distributed among these distances:
60 17 0.17
62 4 0.04
63 25 0.25
64 3 0.03
65 2 0.02
66 2 0.02
67 4 0.04
68 23 0.23
69 3 0.03
70 2 0.02
72 15 0.15
ACGTcount: A:0.52, C:0.05, G:0.03, T:0.41
Consensus pattern (64 bp):
ACTTTAATATTAAATTAATAAAATATTTATCAAGATAAATATTAAATTAAATTTAATATTAAAT
Found at i:25394910 original size:37 final size:36
Alignment explanation
Indices: 25394807--25394923 Score: 107
Period size: 37 Copynumber: 3.2 Consensus size: 36
25394797 GTTAATCTAC
* * *
25394807 AATATAAACATTAAATTAA-ATTAAA-TATTAATAT
1 AATATTAATATTAAATTAATATTAAACTATTAAAAT
* *
25394841 AATCACTTTAATATTAAATTAATA-AAATACTATTAAGAT
1 AAT-A--TTAATATTAAATTAATATTAA-ACTATTAAAAT
25394880 AAGTATTAA-ATTAAATTTAATATTAAACTATTAAAAT
1 AA-TATTAATATTAAA-TTAATATTAAACTATTAAAAT
25394917 AATATTA
1 AATATTA
25394924 TTTTTGGAAA
Statistics
Matches: 68, Mismatches: 6, Indels: 16
0.76 0.07 0.18
Matches are distributed among these distances:
34 3 0.04
35 1 0.01
36 11 0.16
37 37 0.54
38 4 0.06
39 11 0.16
40 1 0.01
ACGTcount: A:0.55, C:0.04, G:0.02, T:0.39
Consensus pattern (36 bp):
AATATTAATATTAAATTAATATTAAACTATTAAAAT
Found at i:25397412 original size:32 final size:32
Alignment explanation
Indices: 25397376--25397440 Score: 130
Period size: 32 Copynumber: 2.0 Consensus size: 32
25397366 ATGCTCACAA
25397376 TGTCACAAATAAAGGTGAGTACCCACAAATCC
1 TGTCACAAATAAAGGTGAGTACCCACAAATCC
25397408 TGTCACAAATAAAGGTGAGTACCCACAAATCC
1 TGTCACAAATAAAGGTGAGTACCCACAAATCC
25397440 T
1 T
25397441 ATGGCATGCC
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.40, C:0.25, G:0.15, T:0.20
Consensus pattern (32 bp):
TGTCACAAATAAAGGTGAGTACCCACAAATCC
Found at i:25402373 original size:40 final size:38
Alignment explanation
Indices: 25402321--25402549 Score: 305
Period size: 40 Copynumber: 5.8 Consensus size: 38
25402311 CGGATATAGC
*
25402321 TACTCGCTCAAATGCCTTCGGGACTTAGCCCGAATATAG
1 TACTCGCACAAATGCCTTCGGGACTTAGCCCGAAT-TAG
* * *
25402360 TAGTTCGCACAAATGCCTTCAGGACTTAGCCCGGATATAG
1 TA-CTCGCACAAATGCCTTCGGGACTTAGCCCGAAT-TAG
25402400 TAACTCGCACAAATGCCTTCGGGACTTAGCCCGTAATTAG
1 T-ACTCGCACAAATGCCTTCGGGACTTAGCCCG-AATTAG
*
25402440 TAACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTTG
1 T-ACTCGCACAAATGCCTTCGGGACTTAGCCC-GAATTAG
*
25402480 TCACTAGCACAAATGCCTTCGGGACTTAGCCCAGAATTAG
1 T-ACTCGCACAAATGCCTTCGGGACTTAGCCC-GAATTAG
*
25402520 TCACTAGCACAAATGCCTTCGGGACTTAGC
1 T-ACTCGCACAAATGCCTTCGGGACTTAGC
25402550 TCGGTTATCA
Statistics
Matches: 174, Mismatches: 12, Indels: 7
0.90 0.06 0.04
Matches are distributed among these distances:
39 2 0.01
40 168 0.97
41 4 0.02
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (38 bp):
TACTCGCACAAATGCCTTCGGGACTTAGCCCGAATTAG
Found at i:25402448 original size:80 final size:78
Alignment explanation
Indices: 25402310--25402549 Score: 338
Period size: 80 Copynumber: 3.0 Consensus size: 78
25402300 TCGGCTTTAA
* **
25402310 CCGGATATAGCTACTCGCTCAAATGCCTTCGGGACTTAGCCCGAATATAGTAGTTCGCACAAATG
1 CCGGATATAG-TACTCGCACAAATGCCTTCGGGACTTAGCCCGAAT-TAGTAACTCGCACAAATG
*
25402375 CCTTCAGGACTTAGC
64 CCTTCGGGACTTAGC
25402390 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGTAATTAGTAACTCGCACAAATG
1 CCGGATATAGT-ACTCGCACAAATGCCTTCGGGACTTAGCCCG-AATTAGTAACTCGCACAAATG
25402455 CCTTCGGGACTTAGC
64 CCTTCGGGACTTAGC
* * * *
25402470 CCGGA-ATTTGTCACTAGCACAAATGCCTTCGGGACTTAGCCCAGAATTAGTCACTAGCACAAAT
1 CCGGATA-TAGT-ACTCGCACAAATGCCTTCGGGACTTAGCCC-GAATTAGTAACTCGCACAAAT
25402534 GCCTTCGGGACTTAGC
63 GCCTTCGGGACTTAGC
25402550 TCGGTTATCA
Statistics
Matches: 147, Mismatches: 9, Indels: 8
0.90 0.05 0.05
Matches are distributed among these distances:
79 2 0.01
80 141 0.96
81 4 0.03
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (78 bp):
CCGGATATAGTACTCGCACAAATGCCTTCGGGACTTAGCCCGAATTAGTAACTCGCACAAATGCC
TTCGGGACTTAGC
Found at i:25402535 original size:120 final size:120
Alignment explanation
Indices: 25402322--25402549 Score: 336
Period size: 120 Copynumber: 1.9 Consensus size: 120
25402312 GGATATAGCT
* * *
25402322 ACTCGCTCAAATGCCTTCGGGACTTAGCCCGAATATAGTAGTTCGCACAAATGCCTTCAGGACTT
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGAATATAGTAGCTAGCACAAATGCCTTCAGGACTT
* *
25402387 AGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGTAATTAGTA
66 AGCCCGAATATAGTAACTAGCACAAATGCCTTCGGGACTTAGCCCGTAATTAGTA
* *
25402442 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAAT-TTGTCA-CTAGCACAAATGCCTTCGGGAC
1 ACTCGCACAAATGCCTTCGGGACTTAGCCC-GAATATAGT-AGCTAGCACAAATGCCTTCAGGAC
*
25402505 TTAGCCCAGAAT-TAGTCACTAGCACAAATGCCTTCGGGACTTAGC
64 TTAGCCC-GAATATAGTAACTAGCACAAATGCCTTCGGGACTTAGC
25402550 TCGGTTATCA
Statistics
Matches: 97, Mismatches: 8, Indels: 6
0.87 0.07 0.05
Matches are distributed among these distances:
120 89 0.92
121 8 0.08
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (120 bp):
ACTCGCACAAATGCCTTCGGGACTTAGCCCGAATATAGTAGCTAGCACAAATGCCTTCAGGACTT
AGCCCGAATATAGTAACTAGCACAAATGCCTTCGGGACTTAGCCCGTAATTAGTA
Found at i:25407449 original size:39 final size:39
Alignment explanation
Indices: 25407390--25407469 Score: 151
Period size: 39 Copynumber: 2.1 Consensus size: 39
25407380 CCACTAAGAG
*
25407390 TTAACCCATTAGATGCTAAAGGACCATCCTGCCTAGTCC
1 TTAACCCATTAGATGATAAAGGACCATCCTGCCTAGTCC
25407429 TTAACCCATTAGATGATAAAGGACCATCCTGCCTAGTCC
1 TTAACCCATTAGATGATAAAGGACCATCCTGCCTAGTCC
25407468 TT
1 TT
25407470 TCCTCACTTG
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
39 40 1.00
ACGTcount: A:0.29, C:0.29, G:0.15, T:0.28
Consensus pattern (39 bp):
TTAACCCATTAGATGATAAAGGACCATCCTGCCTAGTCC
Found at i:25408861 original size:45 final size:45
Alignment explanation
Indices: 25408783--25408890 Score: 116
Period size: 45 Copynumber: 2.4 Consensus size: 45
25408773 TTTCGCCTGT
*
25408783 TAGGCTCG-AGGCCCG-ATATCAGTTCACCGGCATTATAGCCTAC
1 TAGGCTCGAAGGCCCGAATATCAGTTCACCAGCATTATAGCCTAC
** *
25408826 TAGGCTCGAAGGCCCGAATAGT-A-TCTCACCAGCATTATAGTTTGC
1 TAGGCTCGAAGGCCCGAATA-TCAGT-TCACCAGCATTATAGCCTAC
* *
25408871 TAAGCTCGAAGGCCTGAATA
1 TAGGCTCGAAGGCCCGAATA
25408891 ATCAAGTCAA
Statistics
Matches: 55, Mismatches: 6, Indels: 6
0.82 0.09 0.09
Matches are distributed among these distances:
43 8 0.15
44 8 0.15
45 38 0.69
46 1 0.02
ACGTcount: A:0.27, C:0.26, G:0.23, T:0.24
Consensus pattern (45 bp):
TAGGCTCGAAGGCCCGAATATCAGTTCACCAGCATTATAGCCTAC
Found at i:25409268 original size:43 final size:43
Alignment explanation
Indices: 25409220--25409460 Score: 385
Period size: 43 Copynumber: 5.6 Consensus size: 43
25409210 CCGGCATTAC
25409220 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
* *
25409263 GCCTGCTAGGCACGAAGGCCC-AATTCCACATCACTGGCACGAA
1 GCCTGCTAGGCACGAAGGCCCGAA-TACACATCACCGGCACGAA
*
25409306 GCCTGCTAGGCACGAAGGCCCGAATACACATCATCGGCACGAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
* *
25409349 GCCTGCTAGGCACGAAGGCCCAAATACACATCACCGGCACTAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
* * *
25409392 GCCTGCTAGGCATGAAGGCCCGAATACACATCACCGACACTAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
*
25409435 GCCTGCTAGGCACGAAGGCCCAAATA
1 GCCTGCTAGGCACGAAGGCCCGAATA
25409461 TAATGCCAGC
Statistics
Matches: 183, Mismatches: 13, Indels: 4
0.92 0.06 0.02
Matches are distributed among these distances:
42 2 0.01
43 179 0.98
44 2 0.01
ACGTcount: A:0.31, C:0.34, G:0.24, T:0.12
Consensus pattern (43 bp):
GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
Found at i:25409518 original size:38 final size:38
Alignment explanation
Indices: 25409458--25409532 Score: 105
Period size: 38 Copynumber: 2.0 Consensus size: 38
25409448 GAAGGCCCAA
* * * *
25409458 ATATAATGCCAGCACTAGGCCTGCGGGATTTATCCCGG
1 ATATAATACCAGCACGAAGCCTGCGGGATTTAACCCGG
*
25409496 ATATAATACCAGTACGAAGCCTGCGGGATTTAACCCG
1 ATATAATACCAGCACGAAGCCTGCGGGATTTAACCCG
25409533 AATACACATC
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
38 32 1.00
ACGTcount: A:0.28, C:0.25, G:0.24, T:0.23
Consensus pattern (38 bp):
ATATAATACCAGCACGAAGCCTGCGGGATTTAACCCGG
Found at i:25421193 original size:19 final size:19
Alignment explanation
Indices: 25421183--25421220 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
25421173 TCCAAGTGTT
*
25421183 GTAAAAGTTTCATAAGTTC
1 GTAAAAGTTTCACAAGTTC
*
25421202 GTAAAAGTTTCATAAGTTC
1 GTAAAAGTTTCACAAGTTC
25421221 TCAGTTTAGT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.37, C:0.11, G:0.16, T:0.37
Consensus pattern (19 bp):
GTAAAAGTTTCACAAGTTC
Found at i:25444245 original size:65 final size:65
Alignment explanation
Indices: 25444135--25444265 Score: 226
Period size: 65 Copynumber: 2.0 Consensus size: 65
25444125 AGTCCCATGC
* *
25444135 ATCAGATAATAATAACATGGCATGCAGTAAATAGTGACAGCCAAACATGCATTCAGGTCAATCTT
1 ATCAGATAATAATAACATGGCATGCAGTAAATAGTAACAGCCAAACATGCATTCAGGTCAACCTT
* *
25444200 ATCAGATAATAATAACATGGCATGCATTAAATAGTAACAGTCAAACATGCATTCAGGTCAACCTT
1 ATCAGATAATAATAACATGGCATGCAGTAAATAGTAACAGCCAAACATGCATTCAGGTCAACCTT
25444265 A
1 A
25444266 ACCCTAGGGG
Statistics
Matches: 62, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
65 62 1.00
ACGTcount: A:0.41, C:0.18, G:0.15, T:0.25
Consensus pattern (65 bp):
ATCAGATAATAATAACATGGCATGCAGTAAATAGTAACAGCCAAACATGCATTCAGGTCAACCTT
Found at i:25444324 original size:27 final size:26
Alignment explanation
Indices: 25444268--25444324 Score: 62
Period size: 26 Copynumber: 2.2 Consensus size: 26
25444258 CAACCTTAAC
* * *
25444268 CCTAGGGGTATATCAGTAATTTTGCT
1 CCTAGGGGTAAATCAGTAATTTTCCA
25444294 CCTAGGGGTAAATCTA-TAAATTTTCCA
1 CCTAGGGGTAAATC-AGT-AATTTTCCA
25444321 CCTA
1 CCTA
25444325 TAAAGGTATT
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
26 14 0.54
27 12 0.46
ACGTcount: A:0.28, C:0.19, G:0.18, T:0.35
Consensus pattern (26 bp):
CCTAGGGGTAAATCAGTAATTTTCCA
Found at i:25445625 original size:42 final size:42
Alignment explanation
Indices: 25445578--25445663 Score: 154
Period size: 42 Copynumber: 2.0 Consensus size: 42
25445568 AAAAAGGAAG
*
25445578 AAAGAAAATGAAGGAAAATGAGAGGAAGAAGAAATCGGCACC
1 AAAGAAAATGAAGGAAAAAGAGAGGAAGAAGAAATCGGCACC
*
25445620 AAAGAAAATGAAGTAAAAAGAGAGGAAGAAGAAATCGGCACC
1 AAAGAAAATGAAGGAAAAAGAGAGGAAGAAGAAATCGGCACC
25445662 AA
1 AA
25445664 GGAGAACGAA
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
42 42 1.00
ACGTcount: A:0.57, C:0.09, G:0.27, T:0.07
Consensus pattern (42 bp):
AAAGAAAATGAAGGAAAAAGAGAGGAAGAAGAAATCGGCACC
Found at i:25446290 original size:19 final size:18
Alignment explanation
Indices: 25446253--25446296 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 18
25446243 ATACATACAG
25446253 TAAT-ATTTTTCTAATAA
1 TAATAATTTTTCTAATAA
*
25446270 TAATAATTTTATCTCATAA
1 TAATAATTTT-TCTAATAA
*
25446289 TACTAATT
1 TAATAATT
25446297 AAAATTTCAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 4 0.17
18 5 0.22
19 14 0.61
ACGTcount: A:0.41, C:0.09, G:0.00, T:0.50
Consensus pattern (18 bp):
TAATAATTTTTCTAATAA
Found at i:25449182 original size:45 final size:45
Alignment explanation
Indices: 25449100--25449317 Score: 350
Period size: 45 Copynumber: 4.9 Consensus size: 45
25449090 CCGAATTCAT
* * **
25449100 TCACCGGCATT-TCGCTTGCTAGGCTC-AAGGCCCGAATAACATC
1 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATATTATC
**
25449143 TCACCAACATTATAGCCTGCTAGGCTCAAAGGCCCGAATATTATC
1 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATATTATC
25449188 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATATTATC
1 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATATTATC
* *
25449233 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCTGAATAGTATC
1 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATATTATC
25449278 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATA
1 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATA
25449318 GTACTGTACA
Statistics
Matches: 162, Mismatches: 11, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
43 9 0.06
44 13 0.08
45 140 0.86
ACGTcount: A:0.27, C:0.29, G:0.20, T:0.23
Consensus pattern (45 bp):
TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATATTATC
Found at i:25459317 original size:49 final size:49
Alignment explanation
Indices: 25459263--25459489 Score: 256
Period size: 49 Copynumber: 4.6 Consensus size: 49
25459253 CTGGTACGCA
* *
25459263 TAGTAGCCTGCACATAGTACTACACATGCGACTAATTATCCGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACATGTGACTAATTATCCGGTACACG
* * * *
25459312 TAGTAGCCTACACTTAGTACTACACACGTGACCAATTATCCAGTACACG
1 TAGTAGCCTGCACTTAGTACTACACATGTGACTAATTATCCGGTACACG
* * ** * *
25459361 TAGTAGCCTGCACTTAGTACTACACACGTGACCTGACCATCTGATACACG
1 TAGTAGCCTGCACTTAGTACTACACATGTGA-CTAATTATCCGGTACACG
* * * * * *
25459411 TAGTAGCCTACACTTAGTACTACACATGTGATCATAGTTTTCGGGTACGCA
1 TAGTAGCCTGCACTTAGTACTACACATGTGA-C-TAATTATCCGGTACACG
*
25459462 TAGTAGCCTGCACTTAGTATTACACATG
1 TAGTAGCCTGCACTTAGTACTACACATG
25459490 CGACCTCACA
Statistics
Matches: 148, Mismatches: 28, Indels: 2
0.83 0.16 0.01
Matches are distributed among these distances:
49 73 0.49
50 41 0.28
51 34 0.23
ACGTcount: A:0.30, C:0.26, G:0.18, T:0.27
Consensus pattern (49 bp):
TAGTAGCCTGCACTTAGTACTACACATGTGACTAATTATCCGGTACACG
Found at i:25459433 original size:99 final size:100
Alignment explanation
Indices: 25459256--25459493 Score: 291
Period size: 99 Copynumber: 2.4 Consensus size: 100
25459246 AAGCTATCTG
* * * ** *
25459256 GTACGCATAGTAGCCTGCACATAGTACTACACATGCGACTAATTATCCGGTACACGTAGTAGCCT
1 GTACACATAGTAGCCTGCACTTAGTACTACACACGCGACTAACCATCCGATACACGTAGTAGCCT
25459321 ACACTTAGTACTACACACGTGACCA-A-TTATCCA
66 ACACTTAGTACTACACACGTGACCATAGTTATCCA
* * * *
25459354 GTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTGACCATCTGATACACGTAGTAGCC
1 GTACACATAGTAGCCTGCACTTAGTACTACACACGCGA-CTAACCATCCGATACACGTAGTAGCC
* * * **
25459419 TACACTTAGTACTACACATGTGATCATAGTTTTCGG
65 TACACTTAGTACTACACACGTGACCATAGTTATCCA
* * *
25459455 GTACGCATAGTAGCCTGCACTTAGTATTACACATGCGAC
1 GTACACATAGTAGCCTGCACTTAGTACTACACACGCGAC
25459494 CTCACAATAG
Statistics
Matches: 117, Mismatches: 20, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
98 33 0.28
99 45 0.38
100 2 0.02
101 37 0.32
ACGTcount: A:0.29, C:0.26, G:0.18, T:0.26
Consensus pattern (100 bp):
GTACACATAGTAGCCTGCACTTAGTACTACACACGCGACTAACCATCCGATACACGTAGTAGCCT
ACACTTAGTACTACACACGTGACCATAGTTATCCA
Found at i:25463037 original size:18 final size:18
Alignment explanation
Indices: 25463014--25463050 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
25463004 TTTGTGATCA
25463014 AAATTGAAAGTGAAAGTG
1 AAATTGAAAGTGAAAGTG
*
25463032 AAATTGAAATTGAAAGTG
1 AAATTGAAAGTGAAAGTG
25463050 A
1 A
25463051 TAAGAATTGT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.51, C:0.00, G:0.24, T:0.24
Consensus pattern (18 bp):
AAATTGAAAGTGAAAGTG
Found at i:25463039 original size:12 final size:12
Alignment explanation
Indices: 25463014--25463050 Score: 56
Period size: 12 Copynumber: 3.1 Consensus size: 12
25463004 TTTGTGATCA
25463014 AAATTGAAAGTG
1 AAATTGAAAGTG
* *
25463026 AAAGTGAAATTG
1 AAATTGAAAGTG
25463038 AAATTGAAAGTG
1 AAATTGAAAGTG
25463050 A
1 A
25463051 TAAGAATTGT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.51, C:0.00, G:0.24, T:0.24
Consensus pattern (12 bp):
AAATTGAAAGTG
Found at i:25463445 original size:19 final size:19
Alignment explanation
Indices: 25463410--25463456 Score: 69
Period size: 19 Copynumber: 2.4 Consensus size: 19
25463400 AAGAAACTTG
25463410 AATGTGGAATATGATTTGAA
1 AATGT-GAATATGATTTGAA
25463430 AATGTGAAT-TGAATTTGAA
1 AATGTGAATATG-ATTTGAA
25463449 AATGTGAA
1 AATGTGAA
25463457 AAGAAAGCAT
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
18 2 0.08
19 19 0.73
20 5 0.19
ACGTcount: A:0.43, C:0.00, G:0.23, T:0.34
Consensus pattern (19 bp):
AATGTGAATATGATTTGAA
Found at i:25469753 original size:43 final size:43
Alignment explanation
Indices: 25469691--25469861 Score: 163
Period size: 43 Copynumber: 4.0 Consensus size: 43
25469681 TAGGATTTCT
* *
25469691 GATATGTG-TTCTCGTGTAAGACCACGTCTGGGACGTTGGCATC
1 GATATGTGATT-TCATGTAAGACCACGTCTGGGACATTGGCATC
* * * *
25469734 GATATGTAATTTCGA-GTAAGACCATGTCTGGGACATCGACATC
1 GATATGTGATTTC-ATGTAAGACCACGTCTGGGACATTGGCATC
* * *
25469777 G-TAATTGTGA-TTCATGTAAGACC-CTGTTTGAGACAGTGGCATC
1 GAT-A-TGTGATTTCATGTAAGACCAC-GTCTGGGACATTGGCATC
* *
25469820 GACATGTGATTACATGTAAGACCACGTCTGGGACATTGGCAT
1 GATATGTGATTTCATGTAAGACCACGTCTGGGACATTGGCAT
25469862 TGTACGATAT
Statistics
Matches: 101, Mismatches: 18, Indels: 18
0.74 0.13 0.13
Matches are distributed among these distances:
42 7 0.07
43 87 0.86
44 7 0.07
ACGTcount: A:0.26, C:0.19, G:0.26, T:0.29
Consensus pattern (43 bp):
GATATGTGATTTCATGTAAGACCACGTCTGGGACATTGGCATC
Found at i:25473065 original size:17 final size:16
Alignment explanation
Indices: 25473043--25473100 Score: 59
Period size: 17 Copynumber: 3.7 Consensus size: 16
25473033 AGATCTACCC
25473043 ACCCCATGGCCATGGAA
1 ACCCCATGGCCATGG-A
* *
25473060 ACCCCACGGCC-CGG-
1 ACCCCATGGCCATGGA
25473074 -CCCCATGGCCATGGGA
1 ACCCCATGGCCAT-GGA
25473090 ACCCCATGGCC
1 ACCCCATGGCC
25473101 TGGCCACACG
Statistics
Matches: 33, Mismatches: 4, Indels: 8
0.73 0.09 0.18
Matches are distributed among these distances:
13 9 0.27
15 2 0.06
16 2 0.06
17 20 0.61
ACGTcount: A:0.21, C:0.45, G:0.26, T:0.09
Consensus pattern (16 bp):
ACCCCATGGCCATGGA
Found at i:25473080 original size:30 final size:30
Alignment explanation
Indices: 25473044--25473116 Score: 101
Period size: 30 Copynumber: 2.4 Consensus size: 30
25473034 GATCTACCCA
25473044 CCCCATGGCCATGGAAACCCCACGGCCCGG
1 CCCCATGGCCATGGAAACCCCACGGCCCGG
* * *
25473074 CCCCATGGCCATGGGAACCCCATGGCCTGG
1 CCCCATGGCCATGGAAACCCCACGGCCCGG
* *
25473104 CCACACGGCCATG
1 CCCCATGGCCATG
25473117 TCCCAGGCCA
Statistics
Matches: 38, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
30 38 1.00
ACGTcount: A:0.19, C:0.44, G:0.27, T:0.10
Consensus pattern (30 bp):
CCCCATGGCCATGGAAACCCCACGGCCCGG
Found at i:25475308 original size:55 final size:53
Alignment explanation
Indices: 25475168--25475314 Score: 179
Period size: 53 Copynumber: 2.7 Consensus size: 53
25475158 TTTTCCTTTT
* * * * *
25475168 TGAACTTACCATTTCCATGTCTTGACATGGTCTTACGTGGTATCCTTGCCTTA
1 TGAACTCACCAATGCCATGTCTTGACATGGTCTTACATGGGATCCTTGCCTTA
* * *
25475221 TGAACTCACCAATGCCATGCCTTGGCAAGGTCTTACATGGGA-CCTTTGCCTTA
1 TGAACTCACCAATGCCATGTCTTGACATGGTCTTACATGGGATCC-TTGCCTTA
*
25475274 TAGTAACTCATCAATGCCATGTCTTGACATGGTCTTACATG
1 T-G-AACTCACCAATGCCATGTCTTGACATGGTCTTACATG
25475315 ATTTCCTTAC
Statistics
Matches: 79, Mismatches: 12, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
52 2 0.03
53 43 0.54
54 1 0.01
55 33 0.42
ACGTcount: A:0.22, C:0.25, G:0.18, T:0.34
Consensus pattern (53 bp):
TGAACTCACCAATGCCATGTCTTGACATGGTCTTACATGGGATCCTTGCCTTA
Found at i:25475359 original size:54 final size:55
Alignment explanation
Indices: 25475230--25475360 Score: 140
Period size: 55 Copynumber: 2.4 Consensus size: 55
25475220 ATGAACTCAC
* * * *
25475230 CAATGCCATGCCTTGGCAAGGTCTTACATGGGACCTTTGCCTTATAGTAACTCAT
1 CAATGCCATGCCTTGGCATGGTCTTACATGGGACCTTTACCATATAGTAAATCAT
* * *** * *
25475285 CAATGCCATGTCTTGACATGGTCTTACATGATTTCC-TTACCATGTAG-AAATTAT
1 CAATGCCATGCCTTGGCATGGTCTTACATG-GGACCTTTACCATATAGTAAATCAT
25475339 CAATGCCATGCCTTGGCATGGT
1 CAATGCCATGCCTTGGCATGGT
25475361 TTTTGTAACA
Statistics
Matches: 62, Mismatches: 13, Indels: 3
0.79 0.17 0.04
Matches are distributed among these distances:
54 25 0.40
55 35 0.56
56 2 0.03
ACGTcount: A:0.24, C:0.24, G:0.19, T:0.33
Consensus pattern (55 bp):
CAATGCCATGCCTTGGCATGGTCTTACATGGGACCTTTACCATATAGTAAATCAT
Found at i:25476845 original size:47 final size:46
Alignment explanation
Indices: 25476611--25476867 Score: 202
Period size: 47 Copynumber: 5.5 Consensus size: 46
25476601 CAATGCCATA
* * *
25476611 TCCCAGACATGGTCTTACACTGGCTCTCATATATGTGTGCTGATGCATG
1 TCCCAGACAT-GTCTTACACTGGCTCTCATA-CTGTG-ACCGATGCATG
* * * * *
25476660 TCCCAGACATGTCTTACACTAG--CACA-ACTCTTAGCCGATGCGTG
1 TCCCAGACATGTCTTACACTGGCTCTCATACTGTGA-CCGATGCATG
* * * ** *
25476704 TCTCAGACACGTCTTGCACAAGCTATC-T-CTGTCGAGGCCGATGCATG
1 TCCCAGACATGTCTTACACTGGCTCTCATACTGT-GA--CCGATGCATG
* * * *
25476751 TCCCATACATGTCTTACTCTGGCACTCATCTCTGTG-CCGATGCCATG
1 TCCCAGACATGTCTTACACTGGCTCTCAT-ACTGTGACCGATG-CATG
* *
25476798 TCCCAGACATGGTCTTACACTGGCTCTCATAATGTGACCGAAGCATG
1 TCCCAGACAT-GTCTTACACTGGCTCTCATACTGTGACCGATGCATG
25476845 TCCCAGACATGTCTTACACTGGC
1 TCCCAGACATGTCTTACACTGGC
25476868 GCACAAATCA
Statistics
Matches: 164, Mismatches: 32, Indels: 27
0.74 0.14 0.12
Matches are distributed among these distances:
44 28 0.17
45 4 0.02
46 24 0.15
47 59 0.36
48 34 0.21
49 11 0.07
50 4 0.02
ACGTcount: A:0.22, C:0.30, G:0.20, T:0.28
Consensus pattern (46 bp):
TCCCAGACATGTCTTACACTGGCTCTCATACTGTGACCGATGCATG
Found at i:25476846 original size:94 final size:91
Alignment explanation
Indices: 25476597--25476867 Score: 280
Period size: 94 Copynumber: 2.9 Consensus size: 91
25476587 ATGGGATATA
* * * *
25476597 TTGCCAATGCCATATCCCAGACATGGTCTTACACTGGCTCTCATATATGTGTGCTGATGCATGTC
1 TTGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATA-ATGTG-ACCGATGCATGTC
*
25476662 CCAGACATGTCTTACACTAGCACAACTC
64 CCAGACATGTCTTACACTGGCACAACTC
* * * * ** * *
25476690 TTAGCCGATG-CGTGTCTCAGACA-CGTCTTGCACAAGCTATC-T-CTGTCGAGGCCGATGCATG
1 TT-GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAATGT-GA--CCGATGCATG
* * *
25476751 TCCCATACATGTCTTACTCTGGCACTCATCTC
62 TCCCAGACATGTCTTACACTGGCA--CAACTC
*
25476783 TGTGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAATGTGACCGAAGCATGTCC
1 T-TGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAATGTGACCGATGCATGTCC
25476848 CAGACATGTCTTACACTGGC
65 CAGACATGTCTTACACTGGC
25476868 GCACAAATCA
Statistics
Matches: 140, Mismatches: 27, Indels: 21
0.74 0.14 0.11
Matches are distributed among these distances:
89 3 0.02
90 1 0.01
91 31 0.22
92 13 0.09
93 25 0.18
94 48 0.34
95 13 0.09
96 3 0.02
97 3 0.02
ACGTcount: A:0.22, C:0.30, G:0.20, T:0.28
Consensus pattern (91 bp):
TTGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAATGTGACCGATGCATGTCCC
AGACATGTCTTACACTGGCACAACTC
Found at i:25478158 original size:47 final size:47
Alignment explanation
Indices: 25478088--25478207 Score: 186
Period size: 47 Copynumber: 2.6 Consensus size: 47
25478078 GGTTGTTACA
* *
25478088 GTCTTACATGATATCCTTATCTTAGTAAATGCCATGTTCCAAACATG
1 GTCTTACATGGTATCCTTGTCTTAGTAAATGCCATGTTCCAAACATG
** **
25478135 GTCTTACATGGTATCCTTGTCTTACCAAATGCCATGTTCTGAACATG
1 GTCTTACATGGTATCCTTGTCTTAGTAAATGCCATGTTCCAAACATG
25478182 GTCTTACATGGTATCCTTGTCTTAGT
1 GTCTTACATGGTATCCTTGTCTTAGT
25478208 TCCAATGCCA
Statistics
Matches: 65, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
47 65 1.00
ACGTcount: A:0.24, C:0.22, G:0.16, T:0.38
Consensus pattern (47 bp):
GTCTTACATGGTATCCTTGTCTTAGTAAATGCCATGTTCCAAACATG
Found at i:25478296 original size:47 final size:45
Alignment explanation
Indices: 25478130--25478295 Score: 120
Period size: 47 Copynumber: 3.5 Consensus size: 45
25478120 CATGTTCCAA
* *
25478130 ACATGGTCTTACATGGTATCCTTGTC-TTACCAAATGCCATGTTCTG
1 ACATGGTCTTACATGGTATCCTTATCAATACC-AATGCCATGTT-TG
* * * **
25478176 AACATGGTCTTACATGGTATCCTTGTCTTAGTTCCAATGCCACATATTG
1 -ACATGGTCTTACATGGTATCCTTATC--AATACCAATGCCATGT-TTG
** * * * *
25478225 ATGTGGCCTTACATAG-ATTCCTTAATCAATGCCGATGCCATGTCTTG
1 ACATGGTCTTACATGGTA-TCCTT-ATCAATACCAATGCCATGT-TTG
25478272 ACATGGTCTTACATGGTATCCTTA
1 ACATGGTCTTACATGGTATCCTTA
25478296 ACCGTCAATT
Statistics
Matches: 93, Mismatches: 19, Indels: 15
0.73 0.15 0.12
Matches are distributed among these distances:
46 1 0.01
47 58 0.62
48 18 0.19
49 12 0.13
50 4 0.04
ACGTcount: A:0.23, C:0.23, G:0.17, T:0.36
Consensus pattern (45 bp):
ACATGGTCTTACATGGTATCCTTATCAATACCAATGCCATGTTTG
Found at i:25480772 original size:39 final size:39
Alignment explanation
Indices: 25480728--25480890 Score: 290
Period size: 39 Copynumber: 4.2 Consensus size: 39
25480718 ATATATGGTG
25480728 ATTATATCCGGACTTAAGGTCCGTAGGCTATATGCGGGA
1 ATTATATCCGGACTTAAGGTCCGTAGGCTATATGCGGGA
*
25480767 ATTATATCCGGACTTAAGGTCCGTAGGCTATACGCGGGA
1 ATTATATCCGGACTTAAGGTCCGTAGGCTATATGCGGGA
25480806 ATTATATCCGGACTTAAGGTCCGTAGGCTATATGCGGGA
1 ATTATATCCGGACTTAAGGTCCGTAGGCTATATGCGGGA
* *
25480845 ATTATATCCAGACTTAAGGTCCGTTGGCTATATGCGGGA
1 ATTATATCCGGACTTAAGGTCCGTAGGCTATATGCGGGA
*
25480884 ATCATAT
1 ATTATAT
25480891 TCAAACTTCG
Statistics
Matches: 119, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
39 119 1.00
ACGTcount: A:0.26, C:0.18, G:0.26, T:0.29
Consensus pattern (39 bp):
ATTATATCCGGACTTAAGGTCCGTAGGCTATATGCGGGA
Found at i:25480912 original size:39 final size:39
Alignment explanation
Indices: 25480728--25480931 Score: 216
Period size: 39 Copynumber: 5.2 Consensus size: 39
25480718 ATATATGGTG
**
25480728 ATTATATCCGGACTTAAGGTCCG-TAGGCTATATGCGGGA
1 ATTATATCCAAACTTAAGGTCCGCT-GGCTATATGCGGGA
** *
25480767 ATTATATCCGGACTTAAGGTCCG-TAGGCTATACGCGGGA
1 ATTATATCCAAACTTAAGGTCCGCT-GGCTATATGCGGGA
**
25480806 ATTATATCCGGACTTAAGGTCCG-TAGGCTATATGCGGGA
1 ATTATATCCAAACTTAAGGTCCGCT-GGCTATATGCGGGA
* *
25480845 ATTATATCCAGACTTAAGGTCCGTTGGCTATATGCGGGA
1 ATTATATCCAAACTTAAGGTCCGCTGGCTATATGCGGGA
* * ** * * *
25480884 ATCATATTCAAACTTCGGGTTCGCTGGCTATGTGCTGGA
1 ATTATATCCAAACTTAAGGTCCGCTGGCTATATGCGGGA
25480923 ATTATATCC
1 ATTATATCC
25480932 GGGCTAATAG
Statistics
Matches: 150, Mismatches: 14, Indels: 2
0.90 0.08 0.01
Matches are distributed among these distances:
39 149 0.99
40 1 0.01
ACGTcount: A:0.25, C:0.19, G:0.26, T:0.30
Consensus pattern (39 bp):
ATTATATCCAAACTTAAGGTCCGCTGGCTATATGCGGGA
Found at i:25480913 original size:78 final size:78
Alignment explanation
Indices: 25480739--25480931 Score: 262
Period size: 78 Copynumber: 2.5 Consensus size: 78
25480729 TTATATCCGG
*
25480739 ACTTAAGGTCCGTAGGCTATATGCGGGAATTATATCCGGACTTAAGGTCCGTAGGCTATACGCGG
1 ACTTAAGGTCCGTAGGCTATATGCGGGAATTATATCCAGACTTAAGGTCCGTAGGCTATACGCGG
* **
25480804 GAATTATATCCGG
66 GAATCATATCCAA
* *
25480817 ACTTAAGGTCCGTAGGCTATATGCGGGAATTATATCCAGACTTAAGGTCCGTTGGCTATATGCGG
1 ACTTAAGGTCCGTAGGCTATATGCGGGAATTATATCCAGACTTAAGGTCCGTAGGCTATACGCGG
*
25480882 GAATCATATTCAA
66 GAATCATATCCAA
** * * *
25480895 ACTTCGGGTTCGCT-GGCTATGTGCTGGAATTATATCC
1 ACTTAAGGTCCG-TAGGCTATATGCGGGAATTATATCC
25480932 GGGCTAATAG
Statistics
Matches: 102, Mismatches: 12, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
78 101 0.99
79 1 0.01
ACGTcount: A:0.25, C:0.19, G:0.26, T:0.30
Consensus pattern (78 bp):
ACTTAAGGTCCGTAGGCTATATGCGGGAATTATATCCAGACTTAAGGTCCGTAGGCTATACGCGG
GAATCATATCCAA
Found at i:25485193 original size:34 final size:34
Alignment explanation
Indices: 25485147--25485213 Score: 100
Period size: 34 Copynumber: 2.0 Consensus size: 34
25485137 GTTGCATTAC
*
25485147 TGATACTATTACTA-TAATGGGCTAAGGCCCACAT
1 TGATACTATTACTACT-ATGAGCTAAGGCCCACAT
*
25485181 TGATACTGTTACTACTATGAGCTAAGGCCCACA
1 TGATACTATTACTACTATGAGCTAAGGCCCACA
25485214 CAAATACTAG
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
34 29 0.97
35 1 0.03
ACGTcount: A:0.31, C:0.22, G:0.18, T:0.28
Consensus pattern (34 bp):
TGATACTATTACTACTATGAGCTAAGGCCCACAT
Found at i:25485221 original size:34 final size:34
Alignment explanation
Indices: 25485149--25485222 Score: 87
Period size: 34 Copynumber: 2.2 Consensus size: 34
25485139 TGCATTACTG
* ***
25485149 ATACTATTACTATAATGGGCTAAGGCCCACATTG
1 ATACTATTACTATAATGAGCTAAGGCCCACACAA
*
25485183 ATACTGTTACTACT-ATGAGCTAAGGCCCACACAA
1 ATACTATTACTA-TAATGAGCTAAGGCCCACACAA
25485217 ATACTA
1 ATACTA
25485223 GACTGCCACT
Statistics
Matches: 33, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
34 32 0.97
35 1 0.03
ACGTcount: A:0.35, C:0.23, G:0.15, T:0.27
Consensus pattern (34 bp):
ATACTATTACTATAATGAGCTAAGGCCCACACAA
Found at i:25488646 original size:39 final size:39
Alignment explanation
Indices: 25488603--25488744 Score: 221
Period size: 39 Copynumber: 3.6 Consensus size: 39
25488593 TTCGGGTTTA
25488603 AAGGTCCGCAGGCTATGTGCTGGAATTATATCCGGACTT
1 AAGGTCCGCAGGCTATGTGCTGGAATTATATCCGGACTT
**
25488642 AAGGTCAACAGGCTATGTGCTGGAATTATATCCGGACTT
1 AAGGTCCGCAGGCTATGTGCTGGAATTATATCCGGACTT
* * *
25488681 CAGGTCCGCAGGCTATGTGCTAGAATTATAACCGGACTT
1 AAGGTCCGCAGGCTATGTGCTGGAATTATATCCGGACTT
* *
25488720 AAGGTCCGTAGGCTACGTGCTGGAA
1 AAGGTCCGCAGGCTATGTGCTGGAA
25488745 ATATGTCCAG
Statistics
Matches: 92, Mismatches: 11, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
39 92 1.00
ACGTcount: A:0.25, C:0.20, G:0.28, T:0.26
Consensus pattern (39 bp):
AAGGTCCGCAGGCTATGTGCTGGAATTATATCCGGACTT
Found at i:25494076 original size:28 final size:28
Alignment explanation
Indices: 25494045--25494103 Score: 82
Period size: 28 Copynumber: 2.1 Consensus size: 28
25494035 ATGTAGACAC
25494045 ATAGATACAAATTCATACATTCAGATTT
1 ATAGATACAAATTCATACATTCAGATTT
* * * *
25494073 ATAGATGCAAATTTATAGATTTAGATTT
1 ATAGATACAAATTCATACATTCAGATTT
25494101 ATA
1 ATA
25494104 AATGTGGATT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.42, C:0.08, G:0.10, T:0.39
Consensus pattern (28 bp):
ATAGATACAAATTCATACATTCAGATTT
Found at i:25494146 original size:14 final size:14
Alignment explanation
Indices: 25494066--25494157 Score: 78
Period size: 14 Copynumber: 6.6 Consensus size: 14
25494056 TTCATACATT
25494066 CAGATTTATAGATG
1 CAGATTTATAGATG
* *
25494080 CAAATTTATAGATT
1 CAGATTTATAGATG
* *
25494094 TAGATTTATAAATG
1 CAGATTTATAGATG
**
25494108 TGGATTTATAGATG
1 CAGATTTATAGATG
* *
25494122 C-GAATTAATAGATA
1 CAG-ATTTATAGATG
*
25494136 CAGATTCATAGATG
1 CAGATTTATAGATG
*
25494150 CAAATTTA
1 CAGATTTA
25494158 CAAATGTAGA
Statistics
Matches: 61, Mismatches: 15, Indels: 4
0.76 0.19 0.05
Matches are distributed among these distances:
13 1 0.02
14 59 0.97
15 1 0.02
ACGTcount: A:0.40, C:0.07, G:0.16, T:0.37
Consensus pattern (14 bp):
CAGATTTATAGATG
Found at i:25494157 original size:42 final size:42
Alignment explanation
Indices: 25494045--25494157 Score: 118
Period size: 42 Copynumber: 2.7 Consensus size: 42
25494035 ATGTAGACAC
* * * *
25494045 ATAGATACAAATTCATACATTCAGATTTATAGATGCAAATTT
1 ATAGATACAGATTCATAAATGCAGATTTATAGATGCAAATTA
** * ** *
25494087 ATAGATTTAGATTTATAAATGTGGATTTATAGATGCGAATTA
1 ATAGATACAGATTCATAAATGCAGATTTATAGATGCAAATTA
* *
25494129 ATAGATACAGATTCATAGATGCAAATTTA
1 ATAGATACAGATTCATAAATGCAGATTTA
25494158 CAAATGTAGA
Statistics
Matches: 54, Mismatches: 17, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
42 54 1.00
ACGTcount: A:0.42, C:0.08, G:0.14, T:0.36
Consensus pattern (42 bp):
ATAGATACAGATTCATAAATGCAGATTTATAGATGCAAATTA
Found at i:25494168 original size:70 final size:70
Alignment explanation
Indices: 25494066--25494205 Score: 190
Period size: 70 Copynumber: 2.0 Consensus size: 70
25494056 TTCATACATT
* * * * * *
25494066 CAGATTTATAGATGCAAATTTATAGATTTAGATTTATAAATGTGGATTTATAGATGCGAATTAAT
1 CAGATTCATAGATGCAAATTTACAAATGTAGATTCATAAATGTGGATTCATAGATGCGAATTAAT
25494131 AGATA
66 AGATA
* * * *
25494136 CAGATTCATAGATGCAAATTTACAAATGTAGATTCATACATGTGGATTCGTAGATGCGGATTCAT
1 CAGATTCATAGATGCAAATTTACAAATGTAGATTCATAAATGTGGATTCATAGATGCGAATTAAT
25494201 AGATA
66 AGATA
25494206 TCCCGTAGAC
Statistics
Matches: 60, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
70 60 1.00
ACGTcount: A:0.38, C:0.09, G:0.19, T:0.35
Consensus pattern (70 bp):
CAGATTCATAGATGCAAATTTACAAATGTAGATTCATAAATGTGGATTCATAGATGCGAATTAAT
AGATA
Found at i:25494203 original size:14 final size:14
Alignment explanation
Indices: 25494109--25494204 Score: 57
Period size: 14 Copynumber: 6.9 Consensus size: 14
25494099 TTATAAATGT
*
25494109 GGATTTATAGATGC
1 GGATTCATAGATGC
* * *
25494123 GAATTAATAGATAC
1 GGATTCATAGATGC
*
25494137 AGATTCATAGATGC
1 GGATTCATAGATGC
** * * * *
25494151 AAATTTACAAATGT
1 GGATTCATAGATGC
* * *
25494165 AGATTCATACATGT
1 GGATTCATAGATGC
*
25494179 GGATTCGTAGATGC
1 GGATTCATAGATGC
25494193 GGATTCATAGAT
1 GGATTCATAGAT
25494205 ATCCCGTAGA
Statistics
Matches: 61, Mismatches: 21, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
14 61 1.00
ACGTcount: A:0.36, C:0.10, G:0.21, T:0.32
Consensus pattern (14 bp):
GGATTCATAGATGC
Found at i:25494715 original size:13 final size:13
Alignment explanation
Indices: 25494697--25494732 Score: 54
Period size: 13 Copynumber: 2.8 Consensus size: 13
25494687 ATTGTTGTTT
25494697 TGGCATATAGGTC
1 TGGCATATAGGTC
25494710 TGGCATATAGGTC
1 TGGCATATAGGTC
* *
25494723 GGGCACATAG
1 TGGCATATAG
25494733 CAAATGTTAG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.25, C:0.17, G:0.33, T:0.25
Consensus pattern (13 bp):
TGGCATATAGGTC
Found at i:25495625 original size:31 final size:31
Alignment explanation
Indices: 25495589--25495650 Score: 124
Period size: 31 Copynumber: 2.0 Consensus size: 31
25495579 AAATATGGAT
25495589 ATTAAGCATAGAGAAAGGGAGAGTTTTTTTC
1 ATTAAGCATAGAGAAAGGGAGAGTTTTTTTC
25495620 ATTAAGCATAGAGAAAGGGAGAGTTTTTTTC
1 ATTAAGCATAGAGAAAGGGAGAGTTTTTTTC
25495651 TTTCTTTTAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.35, C:0.06, G:0.26, T:0.32
Consensus pattern (31 bp):
ATTAAGCATAGAGAAAGGGAGAGTTTTTTTC
Found at i:25496548 original size:26 final size:27
Alignment explanation
Indices: 25496456--25496558 Score: 91
Period size: 27 Copynumber: 3.9 Consensus size: 27
25496446 CGTGAACATG
* * **
25496456 TCATGAAA-AGAAGCCTTTGTGGTGAA
1 TCATGAAAGAAAAGCCTTTATGGCAAA
** * *
25496482 TCACAAAAGAAAAGCCTTTCTGGCGAA
1 TCATGAAAGAAAAGCCTTTATGGCAAA
* *
25496509 TCATGAAAGAAAAACTTTTATGGCAAA
1 TCATGAAAGAAAAGCCTTTATGGCAAA
* *
25496536 TCATGCAAGAAAAGCCTCTATGG
1 TCATGAAAGAAAAGCCTTTATGG
25496559 AAAACCCTGC
Statistics
Matches: 61, Mismatches: 15, Indels: 1
0.79 0.19 0.01
Matches are distributed among these distances:
26 6 0.10
27 55 0.90
ACGTcount: A:0.40, C:0.17, G:0.20, T:0.23
Consensus pattern (27 bp):
TCATGAAAGAAAAGCCTTTATGGCAAA
Found at i:25498006 original size:27 final size:27
Alignment explanation
Indices: 25497964--25498023 Score: 75
Period size: 27 Copynumber: 2.2 Consensus size: 27
25497954 AGCATAGCTT
* *
25497964 CCAGAAACAGTAAATGTGCCAAAGCCA
1 CCAGTAACAGTAAATGTGACAAAGCCA
* * *
25497991 CCAGTAACAGTGAATGTGACATAGTCA
1 CCAGTAACAGTAAATGTGACAAAGCCA
25498018 CCAGTA
1 CCAGTA
25498024 CAATACTTCC
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.40, C:0.23, G:0.20, T:0.17
Consensus pattern (27 bp):
CCAGTAACAGTAAATGTGACAAAGCCA
Found at i:25498195 original size:27 final size:27
Alignment explanation
Indices: 25498164--25498543 Score: 386
Period size: 27 Copynumber: 14.4 Consensus size: 27
25498154 GGGCATAATC
* * * *
25498164 GTCATTTTACCATATAGGGGTATTACT
1 GTCATTTTACCCTACAGGGGCATTACG
* *
25498191 ATCATTTTACCCTACAGAGGCATTACG
1 GTCATTTTACCCTACAGGGGCATTACG
* * *
25498218 GTCATTCTACCCTACAGGGGTATTGCG
1 GTCATTTTACCCTACAGGGGCATTACG
*
25498245 GTCATTTTACCCTATA--GG------G
1 GTCATTTTACCCTACAGGGGCATTACG
* * *
25498264 G-CATTTTATCCTACAGGGGTATTATG
1 GTCATTTTACCCTACAGGGGCATTACG
* * *
25498290 ATCATTTTACCCTATAGGGGTATTACG
1 GTCATTTTACCCTACAGGGGCATTACG
* *
25498317 GTCATTTGACCCTATAGGGGCATTACG
1 GTCATTTTACCCTACAGGGGCATTACG
* * *
25498344 GTCATTTTACCCTACAGGGGTATCACA
1 GTCATTTTACCCTACAGGGGCATTACG
* **
25498371 GTCATTTTACCCCATTGGGGCATTACG
1 GTCATTTTACCCTACAGGGGCATTACG
* * **
25498398 ATCATTTTACCCTACA-AGGTTTTACG
1 GTCATTTTACCCTACAGGGGCATTACG
25498424 GTCATTTTACCCTACAGGGGCATTA-G
1 GTCATTTTACCCTACAGGGGCATTACG
*
25498450 GATCATTTTACCCTACAAGGGCATTACG
1 G-TCATTTTACCCTACAGGGGCATTACG
* *
25498478 GTCATTTTACCCTACAGGGGTATTACA
1 GTCATTTTACCCTACAGGGGCATTACG
*
25498505 GTCATTTTACTCTACAGGGGCATTACG
1 GTCATTTTACCCTACAGGGGCATTACG
25498532 GTCATTTTACCC
1 GTCATTTTACCC
25498544 ATTCTCGGGT
Statistics
Matches: 289, Mismatches: 52, Indels: 24
0.79 0.14 0.07
Matches are distributed among these distances:
18 12 0.04
19 2 0.01
20 2 0.01
25 2 0.01
26 25 0.09
27 244 0.84
28 2 0.01
ACGTcount: A:0.24, C:0.23, G:0.20, T:0.34
Consensus pattern (27 bp):
GTCATTTTACCCTACAGGGGCATTACG
Found at i:25498270 original size:18 final size:18
Alignment explanation
Indices: 25498247--25498282 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
25498237 GTATTGCGGT
*
25498247 CATTTTACCCTATAGGGG
1 CATTTTACCCTACAGGGG
*
25498265 CATTTTATCCTACAGGGG
1 CATTTTACCCTACAGGGG
25498283 TATTATGATC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.22, C:0.22, G:0.22, T:0.33
Consensus pattern (18 bp):
CATTTTACCCTACAGGGG
Found at i:25498310 original size:72 final size:72
Alignment explanation
Indices: 25498193--25498340 Score: 215
Period size: 72 Copynumber: 2.1 Consensus size: 72
25498183 GTATTACTAT
* * *
25498193 CATTTTACCCTACAGAGGCATTACGGTCATTCTACCCTACAGGGGTATTGCGGTCATTTTACCCT
1 CATTTTACCCTACAGAGGCATTACGATCATTCTACCCTACAGGGGTATTACGGTCATTTGACCCT
25498258 ATAGGGG
66 ATAGGGG
* * * * * *
25498265 CATTTTATCCTACAGGGGTATTATGATCATTTTACCCTATAGGGGTATTACGGTCATTTGACCCT
1 CATTTTACCCTACAGAGGCATTACGATCATTCTACCCTACAGGGGTATTACGGTCATTTGACCCT
25498330 ATAGGGG
66 ATAGGGG
25498337 CATT
1 CATT
25498341 ACGGTCATTT
Statistics
Matches: 67, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
72 67 1.00
ACGTcount: A:0.23, C:0.22, G:0.22, T:0.34
Consensus pattern (72 bp):
CATTTTACCCTACAGAGGCATTACGATCATTCTACCCTACAGGGGTATTACGGTCATTTGACCCT
ATAGGGG
Found at i:25498475 original size:134 final size:134
Alignment explanation
Indices: 25498291--25498543 Score: 391
Period size: 134 Copynumber: 1.9 Consensus size: 134
25498281 GGTATTATGA
* * * *
25498291 TCATTTTACCCTATAGGGGTATTACGGTCATTTGACCCTATAGGGGCATTACGGTCATTTTACCC
1 TCATTTTACCCTACAGGGGCATTACGGTCATTTGACCCTACAAGGGCATTACGGTCATTTTACCC
**
25498356 TACAGGGGTATCACAGTCATTTTACCCCATTGGGGCATTACGATCATTTTACCCTACAAGGTTTT
66 TACAGGGGTATCACAGTCATTTTACCCCACAGGGGCATTACGATCATTTTACCCTACAAGGTTTT
25498421 ACGG
131 ACGG
*
25498425 TCATTTTACCCTACAGGGGCATTA-GGATCATTTTACCCTACAAGGGCATTACGGTCATTTTACC
1 TCATTTTACCCTACAGGGGCATTACGG-TCATTTGACCCTACAAGGGCATTACGGTCATTTTACC
* * * *
25498489 CTACAGGGGTATTACAGTCATTTTACTCTACAGGGGCATTACGGTCATTTTACCC
65 CTACAGGGGTATCACAGTCATTTTACCCCACAGGGGCATTACGATCATTTTACCC
25498544 ATTCTCGGGT
Statistics
Matches: 107, Mismatches: 11, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
133 2 0.02
134 105 0.98
ACGTcount: A:0.24, C:0.24, G:0.19, T:0.33
Consensus pattern (134 bp):
TCATTTTACCCTACAGGGGCATTACGGTCATTTGACCCTACAAGGGCATTACGGTCATTTTACCC
TACAGGGGTATCACAGTCATTTTACCCCACAGGGGCATTACGATCATTTTACCCTACAAGGTTTT
ACGG
Found at i:25498798 original size:17 final size:17
Alignment explanation
Indices: 25498772--25498814 Score: 77
Period size: 17 Copynumber: 2.5 Consensus size: 17
25498762 AATCTGTGTG
*
25498772 GGGCCCACAAGCCTATT
1 GGGCCTACAAGCCTATT
25498789 GGGCCTACAAGCCTATT
1 GGGCCTACAAGCCTATT
25498806 GGGCCTACA
1 GGGCCTACA
25498815 TGGCCTATTT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
17 25 1.00
ACGTcount: A:0.23, C:0.33, G:0.26, T:0.19
Consensus pattern (17 bp):
GGGCCTACAAGCCTATT
Found at i:25515143 original size:25 final size:25
Alignment explanation
Indices: 25515110--25515158 Score: 89
Period size: 25 Copynumber: 2.0 Consensus size: 25
25515100 AGCTATACTT
25515110 TGATTCACAGCTCGTGTAAGCATAC
1 TGATTCACAGCTCGTGTAAGCATAC
*
25515135 TGATTCACAGCTCGTGTGAGCATA
1 TGATTCACAGCTCGTGTAAGCATA
25515159 TATGTACAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.27, C:0.22, G:0.22, T:0.29
Consensus pattern (25 bp):
TGATTCACAGCTCGTGTAAGCATAC
Found at i:25519686 original size:38 final size:38
Alignment explanation
Indices: 25519636--25519730 Score: 118
Period size: 40 Copynumber: 2.4 Consensus size: 38
25519626 CCAACACTGT
*
25519636 CCAACCCAACACACCATGTAGGGATAAAATCGACCCAC
1 CCAACCCTACACACCATGTAGGGATAAAATCGACCCAC
* * * * *
25519674 CCATCCCTACACACCACATTTGGGGATAAAATTGACCCAT
1 CCAACCCTACACA-C-CATGTAGGGATAAAATCGACCCAC
25519714 CCAACCCTACACACCAT
1 CCAACCCTACACACCAT
25519731 AAAGTACCGT
Statistics
Matches: 48, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
38 14 0.29
39 2 0.04
40 32 0.67
ACGTcount: A:0.36, C:0.38, G:0.11, T:0.16
Consensus pattern (38 bp):
CCAACCCTACACACCATGTAGGGATAAAATCGACCCAC
Found at i:25536751 original size:40 final size:40
Alignment explanation
Indices: 25536646--25536862 Score: 273
Period size: 40 Copynumber: 5.5 Consensus size: 40
25536636 CGGATGATAA
* *
25536646 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA-ATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-T
** *
25536686 CTTGGCTAAG-CCCAAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
25536725 CCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
25536765 CCGGGCTAAGTCCCGAAGGCATTTGTGTGAGTTACTATAAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAT-AT
* *
25536806 -CGGGCTAAGTCCCGAAGGCATTTGAGCAAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
* *
25536845 CC-GGCTAAATTCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
25536863 TACTTGGTTT
Statistics
Matches: 156, Mismatches: 16, Indels: 11
0.85 0.09 0.06
Matches are distributed among these distances:
39 50 0.32
40 104 0.67
41 2 0.01
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:25539701 original size:27 final size:27
Alignment explanation
Indices: 25539666--25539717 Score: 86
Period size: 27 Copynumber: 1.9 Consensus size: 27
25539656 CCACTGAATC
* *
25539666 GGGGAATCATCACTTAGCAACCCCTCG
1 GGGGAATCAGCACATAGCAACCCCTCG
25539693 GGGGAATCAGCACATAGCAACCCCT
1 GGGGAATCAGCACATAGCAACCCCT
25539718 TTTCATTTCA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.29, C:0.33, G:0.23, T:0.15
Consensus pattern (27 bp):
GGGGAATCAGCACATAGCAACCCCTCG
Found at i:25539790 original size:68 final size:70
Alignment explanation
Indices: 25539676--25539824 Score: 221
Period size: 70 Copynumber: 2.1 Consensus size: 70
25539666 GGGGAATCAT
* *
25539676 CACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAA-CCCCTTTTCATTTCAAATATACAATGG
1 CACTTAGCAACCCCTC-GGGGAATCAGCACATAGCAACCCCCTTTACATTTCAAAGATACAATGG
25539740 ATATCG
65 ATATCG
***
25539746 CACTTAGCAACCCCTC-GGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGTGG
1 CACTTAGCAACCCCTCGGGGAATCAGCACATAGCAACCCCCTTT-ACATTTCAAAGATACAATGG
25539810 ATATCG
65 ATATCG
25539816 CACTTAGCA
1 CACTTAGCA
25539825 CCACCAATGA
Statistics
Matches: 72, Mismatches: 5, Indels: 4
0.89 0.06 0.05
Matches are distributed among these distances:
68 19 0.26
69 7 0.10
70 46 0.64
ACGTcount: A:0.31, C:0.30, G:0.16, T:0.23
Consensus pattern (70 bp):
CACTTAGCAACCCCTCGGGGAATCAGCACATAGCAACCCCCTTTACATTTCAAAGATACAATGGA
TATCG
Found at i:25539866 original size:102 final size:103
Alignment explanation
Indices: 25539745--25539965 Score: 365
Period size: 103 Copynumber: 2.2 Consensus size: 103
25539735 AATGGATATC
25539745 GCACTTAGCAACCCCTC-GGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGTG
1 GCACTTAGCAACCCCTCGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGTG
* *
25539809 GAT-ATCGCACTTAGCACCACCAATGAACCGGGGAATCA
66 GATCA-CGCACATAGCACCACCAATAAACCGGGGAATCA
25539847 GCACTTAGCAACCCCTCGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGTG
1 GCACTTAGCAACCCCTCGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGTG
* *
25539912 GATCACGCACATAGCACCACCCATAAATCGGGGAATCA
66 GATCACGCACATAGCACCACCAATAAACCGGGGAATCA
**
25539950 GCACACAGCAACCCCT
1 GCACTTAGCAACCCCT
25539966 TTTATATACA
Statistics
Matches: 111, Mismatches: 6, Indels: 3
0.93 0.05 0.03
Matches are distributed among these distances:
102 17 0.15
103 93 0.84
104 1 0.01
ACGTcount: A:0.32, C:0.32, G:0.18, T:0.18
Consensus pattern (103 bp):
GCACTTAGCAACCCCTCGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGTG
GATCACGCACATAGCACCACCAATAAACCGGGGAATCA
Found at i:25539867 original size:26 final size:26
Alignment explanation
Indices: 25539837--25539887 Score: 93
Period size: 26 Copynumber: 2.0 Consensus size: 26
25539827 ACCAATGAAC
*
25539837 CGGGGAATCAGCACTTAGCAACCCCT
1 CGGGGAATCAGCACATAGCAACCCCT
25539863 CGGGGAATCAGCACATAGCAACCCC
1 CGGGGAATCAGCACATAGCAACCCC
25539888 CTTTCACATT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.29, C:0.35, G:0.24, T:0.12
Consensus pattern (26 bp):
CGGGGAATCAGCACATAGCAACCCCT
Found at i:25540327 original size:29 final size:29
Alignment explanation
Indices: 25540294--25540357 Score: 76
Period size: 30 Copynumber: 2.2 Consensus size: 29
25540284 TAATCCACCA
25540294 CCCAACTTTTTG-AAAATTACAATTTTGCC
1 CCCAAC-TTTTGCAAAATTACAATTTTGCC
* * *
25540323 CCCAAACTTTTGCATAATTACACTTTTGTC
1 CCC-AACTTTTGCAAAATTACAATTTTGCC
25540353 CCCAA
1 CCCAA
25540358 GATCGGAAAT
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:25540331 original size:30 final size:30
Alignment explanation
Indices: 25540301--25540357 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
25540291 CCACCCAACT
25540301 TTTTG-AAAATTACAATTTTGCCCCCAAAC
1 TTTTGCAAAATTACAATTTTGCCCCCAAAC
* * *
25540330 TTTTGCATAATTACACTTTTGTCCCCAA
1 TTTTGCAAAATTACAATTTTGCCCCCAA
25540358 GATCGGAAAT
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:25547602 original size:40 final size:40
Alignment explanation
Indices: 25547434--25547647 Score: 231
Period size: 40 Copynumber: 5.4 Consensus size: 40
25547424 ATGATAACCT
* * *
25547434 GGCTAAGTCCCGAAGGTATTTGTGCTAGTGACTA-ATTCCG
1 GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-TCCG
*
25547474 GGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTATATCTG
1 GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCG
** * * *
25547513 GGCTAAGTCATGAAGGAAATTGTGTGAGTTACTATATCCG
1 GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCG
25547553 GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAAT-CG
1 GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAT-ATCCG
* * * *
25547593 GGCTAAGTCCCAAAGCCATTTGAGCAAG-TAGCTATATCC-
1 GGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATATCCG
* *
25547632 GGCTAAATTCCGAAGG
1 GGCTAAGTCCCGAAGG
25547648 TACTTGGTTT
Statistics
Matches: 146, Mismatches: 23, Indels: 11
0.81 0.13 0.06
Matches are distributed among these distances:
39 49 0.34
40 95 0.65
41 2 0.01
ACGTcount: A:0.27, C:0.20, G:0.27, T:0.27
Consensus pattern (40 bp):
GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCG
Found at i:25557314 original size:60 final size:60
Alignment explanation
Indices: 25557188--25557337 Score: 167
Period size: 60 Copynumber: 2.5 Consensus size: 60
25557178 AATTTCTAGT
* * * * *
25557188 CCCAAATTTTAAACCGTAGTTTTAAAAAAAATCCCTTTTCAAATTTTTATTATTTTTGTTTA
1 CCCAAATTATAAACCGTA--ATTAAAAAAAATCCCTTTTCAAATATTTAATATTTTCGTTTA
*** *
25557250 CCCAAATTATAAACCGTAATTAAAAAAAACTTTTTTTTCAAA-ATTTAATATTTTCGTTTC
1 CCCAAATTATAAACCGTAATTAAAAAAAA-TCCCTTTTCAAATATTTAATATTTTCGTTTA
* *
25557310 CCCAAACTATAAACCGTAGTTAAAAAAA
1 CCCAAATTATAAACCGTAATTAAAAAAA
25557338 TAACCCATTC
Statistics
Matches: 76, Mismatches: 11, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
60 50 0.66
61 9 0.12
62 17 0.22
ACGTcount: A:0.40, C:0.16, G:0.05, T:0.39
Consensus pattern (60 bp):
CCCAAATTATAAACCGTAATTAAAAAAAATCCCTTTTCAAATATTTAATATTTTCGTTTA
Found at i:25581692 original size:45 final size:45
Alignment explanation
Indices: 25581583--25581795 Score: 246
Period size: 45 Copynumber: 4.6 Consensus size: 45
25581573 GTAAGATGCT
* * * * * *
25581583 GATGCCATGTCCCGGACATGGTCTTACACTAGCTCTCATCTCCATACT
1 GATGCCATGT-CC-AACATGGTCTTACACTGGCTCTCA-ATCAACACC
* *
25581631 GATGCCATGTCAAACATGGTCTTACACTGGCTTTCAATCAACACC
1 GATGCCATGTCCAACATGGTCTTACACTGGCTCTCAATCAACACC
* **
25581676 GATGCCATGTCCAACATGGTCTTACGCTGGCTCTCAATCAATGCC
1 GATGCCATGTCCAACATGGTCTTACACTGGCTCTCAATCAACACC
* * * *
25581721 GATGCCATATCCAACATGGTCTGACACTGGCTCTCAATCAACGCT
1 GATGCCATGTCCAACATGGTCTTACACTGGCTCTCAATCAACACC
25581766 GATGCCATGTCCCAGACATGGTCTTACACT
1 GATGCCATGT-CCA-ACATGGTCTTACACT
25581796 AGCACACATA
Statistics
Matches: 143, Mismatches: 20, Indels: 5
0.85 0.12 0.03
Matches are distributed among these distances:
45 94 0.66
46 24 0.17
47 15 0.10
48 10 0.07
ACGTcount: A:0.24, C:0.31, G:0.18, T:0.27
Consensus pattern (45 bp):
GATGCCATGTCCAACATGGTCTTACACTGGCTCTCAATCAACACC
Found at i:25581748 original size:90 final size:92
Alignment explanation
Indices: 25581583--25581808 Score: 285
Period size: 90 Copynumber: 2.5 Consensus size: 92
25581573 GTAAGATGCT
* * * * *
25581583 GATGCCATGTCCCGGACATGGTCTTACACTAGCTCTCATCTCCATACTGATGCCATGTCAAACAT
1 GATGCCATGTCCC-AACATGGTCTTACACTAGCTCTCATATCAATACCGATGCCATATCAAACAT
* *
25581648 GGTCTTACACTGGCTTTCAATCAACACC
65 GGTCTGACACTGGCTCTCAATCAACACC
* * * *
25581676 GATGCCATGT-CCAACATGGTCTTACGCTGGCTCTCA-ATCAATGCCGATGCCATATCCAACATG
1 GATGCCATGTCCCAACATGGTCTTACACTAGCTCTCATATCAATACCGATGCCATATCAAACATG
* *
25581739 GTCTGACACTGGCTCTCAATCAACGCT
66 GTCTGACACTGGCTCTCAATCAACACC
* *
25581766 GATGCCATGTCCCAGACATGGTCTTACACTAGCACACATATCA
1 GATGCCATGTCCCA-ACATGGTCTTACACTAGCTCTCATATCA
25581809 CCTTAGTACC
Statistics
Matches: 113, Mismatches: 17, Indels: 6
0.83 0.12 0.04
Matches are distributed among these distances:
90 54 0.48
91 24 0.21
92 21 0.19
93 14 0.12
ACGTcount: A:0.26, C:0.31, G:0.17, T:0.26
Consensus pattern (92 bp):
GATGCCATGTCCCAACATGGTCTTACACTAGCTCTCATATCAATACCGATGCCATATCAAACATG
GTCTGACACTGGCTCTCAATCAACACC
Found at i:25592793 original size:48 final size:48
Alignment explanation
Indices: 25592666--25592811 Score: 213
Period size: 48 Copynumber: 3.0 Consensus size: 48
25592656 CAAGATAAAT
* *
25592666 ATATATATATGTGGTAAAGCCGAATGGCTAACATGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATATGAAATATGTATGAG
* * *
25592714 ACATGTATATGTGGTAAAGTCGACTGGCTAATATGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATATGAAATATGTATGAG
* *
25592762 ATATGTATATGTGGTAAAGCCGAATGGCTAATGA-GCAATATGTAGGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAAT-ATGAAATATGTATGAG
25592810 AT
1 AT
25592812 GTCTGTATAT
Statistics
Matches: 87, Mismatches: 10, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
48 86 0.99
49 1 0.01
ACGTcount: A:0.37, C:0.08, G:0.25, T:0.29
Consensus pattern (48 bp):
ATATGTATATGTGGTAAAGCCGAATGGCTAATATGAAATATGTATGAG
Found at i:25593002 original size:37 final size:37
Alignment explanation
Indices: 25592952--25593022 Score: 124
Period size: 37 Copynumber: 1.9 Consensus size: 37
25592942 GGAAATATAT
*
25592952 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATAACTACGTGTGGAGATTTTG
*
25592989 TCCGGGTAAGACCCGATAACTACGTGTGGGGATT
1 TCCGGGTAAGACCCGATAACTACGTGTGGAGATT
25593023 ATTCGAGCTA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 32 1.00
ACGTcount: A:0.23, C:0.20, G:0.32, T:0.25
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATAACTACGTGTGGAGATTTTG
Found at i:25596678 original size:48 final size:48
Alignment explanation
Indices: 25596555--25596846 Score: 270
Period size: 48 Copynumber: 6.0 Consensus size: 48
25596545 AAAAGGGTAA
** * * * * *
25596555 AATGCCGATGCCATGTCTTAGACAAGGTCTTACATTGGCTCTCATACATC
1 AATGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCACACAT--ATC
** *
25596605 GGTGTCGATGCCATGTCCCAGACATGGTCTTACACT-G-ACACATATAAC
1 AATGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCACACATAT--C
* * * * * * *
25596653 AATGCTGATGCCATGTTCCAAACATGGTTTTACACTAGCTCGCATATT
1 AATGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCACACATATC
* * *
25596701 GAGGCCAATGCCATGTCCCAGACATGGTCTTACACTAGCACACATATC
1 AATGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCACACATATC
* * * *
25596749 AACGCCGATGCCATGTCCCAGACATGGTCATACACT-G-ACTCTTAT-
1 AATGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCACACATATC
25596794 AATGTGGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCACACATATC
1 AA--T-GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCACACATATC
25596845 AA
1 AA
25596847 CCAAATGCCT
Statistics
Matches: 193, Mismatches: 39, Indels: 19
0.77 0.16 0.08
Matches are distributed among these distances:
45 2 0.01
46 8 0.04
47 1 0.01
48 136 0.70
49 3 0.02
50 41 0.21
51 2 0.01
ACGTcount: A:0.28, C:0.28, G:0.18, T:0.26
Consensus pattern (48 bp):
AATGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCACACATATC
Found at i:25596727 original size:96 final size:96
Alignment explanation
Indices: 25596612--25596847 Score: 325
Period size: 96 Copynumber: 2.5 Consensus size: 96
25596602 ATCGGTGTCG
* * *
25596612 ATGCCATGTCCCAGACATGGTCTTACACT-G-ACACATATAACAATGCTGATGCCATGTTCCAAA
1 ATGCCATGTCCCAGACATGGTCTTACACTAGCACACATAT--CAACGCCGATGCCATGTCCCAAA
** *
25596675 CATGGTTTTACACT-AGCTCGCATATTGAGGCCA
64 CATGGTCATACACTGA-CTCGCATAATGAGGCCA
*
25596708 ATGCCATGTCCCAGACATGGTCTTACACTAGCACACATATCAACGCCGATGCCATGTCCCAGACA
1 ATGCCATGTCCCAGACATGGTCTTACACTAGCACACATATCAACGCCGATGCCATGTCCCAAACA
** * *
25596773 TGGTCATACACTGACTCTTATAATGTGGCCG
66 TGGTCATACACTGACTCGCATAATGAGGCCA
25596804 ATGCCATGTCCCAGACATGGTCTTACACTAGCACACATATCAAC
1 ATGCCATGTCCCAGACATGGTCTTACACTAGCACACATATCAAC
25596848 CAAATGCCTT
Statistics
Matches: 126, Mismatches: 11, Indels: 6
0.88 0.08 0.04
Matches are distributed among these distances:
96 116 0.92
97 2 0.02
98 8 0.06
ACGTcount: A:0.29, C:0.29, G:0.17, T:0.25
Consensus pattern (96 bp):
ATGCCATGTCCCAGACATGGTCTTACACTAGCACACATATCAACGCCGATGCCATGTCCCAAACA
TGGTCATACACTGACTCGCATAATGAGGCCA
Found at i:25599582 original size:16 final size:16
Alignment explanation
Indices: 25599561--25599591 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
25599551 TTGCCCCTAA
25599561 ACTTTGTCATATTTAC
1 ACTTTGTCATATTTAC
25599577 ACTTTGTCATATTTA
1 ACTTTGTCATATTTA
25599592 TTAGTCACGT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.26, C:0.16, G:0.06, T:0.52
Consensus pattern (16 bp):
ACTTTGTCATATTTAC
Found at i:25599697 original size:22 final size:22
Alignment explanation
Indices: 25599672--25599738 Score: 73
Period size: 22 Copynumber: 3.0 Consensus size: 22
25599662 CTTCAGATTC
25599672 AGCTCAAAAGAGCTTACTGTTT
1 AGCTCAAAAGAGCTTACTGTTT
*
25599694 AGCTCCATAA-AGCTTACTGTTT
1 AGCT-CAAAAGAGCTTACTGTTT
* * * *
25599716 AGCTCCATAGGGCTTACTATTT
1 AGCTCAAAAGAGCTTACTGTTT
25599738 A
1 A
25599739 TCAACTCATG
Statistics
Matches: 37, Mismatches: 6, Indels: 4
0.79 0.13 0.09
Matches are distributed among these distances:
21 2 0.05
22 31 0.84
23 4 0.11
ACGTcount: A:0.28, C:0.21, G:0.16, T:0.34
Consensus pattern (22 bp):
AGCTCAAAAGAGCTTACTGTTT
Found at i:25610546 original size:40 final size:40
Alignment explanation
Indices: 25610484--25610700 Score: 246
Period size: 40 Copynumber: 5.5 Consensus size: 40
25610474 AAGCCAAGTA
* * *
25610484 CCTTCGGGATTTA-ACCGGATATAGCT-ACTCGCTCGAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACGAATG
* *
25610523 CCTTCGGGACATAGCCCGGATATAGTAACTCGCACCAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACGAATG
* *
25610563 CCTTCGGGACTTAGCCCGGACATAATAACTCGCACGAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACGAATG
* * *
25610603 CCTTCGGGAATTAGCCCGGGTATAATAACTCGCAC-AATTG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACGAA-TG
* * * *
25610643 CCTTCGGG-CTTAGCCTGGA-ATTAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACGAATG
25610682 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
25610701 TTATCATCCG
Statistics
Matches: 153, Mismatches: 19, Indels: 11
0.84 0.10 0.06
Matches are distributed among these distances:
38 1 0.01
39 42 0.27
40 110 0.72
ACGTcount: A:0.25, C:0.28, G:0.24, T:0.24
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACGAATG
Found at i:25614375 original size:27 final size:27
Alignment explanation
Indices: 25614345--25614436 Score: 121
Period size: 27 Copynumber: 3.4 Consensus size: 27
25614335 ATTACCAAAG
* * *
25614345 TACCCTCAATTTATAAAATCACTGTTT
1 TACCCTCGATTTACAAAATTACTGTTT
* *
25614372 TACCCTTGATTTACAGAATTACTGTTT
1 TACCCTCGATTTACAAAATTACTGTTT
*
25614399 TACCCTCGATTTACAAAATTACCGTTT
1 TACCCTCGATTTACAAAATTACTGTTT
*
25614426 TACCGTCGATT
1 TACCCTCGATT
25614437 GTGAAATTAT
Statistics
Matches: 56, Mismatches: 9, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 56 1.00
ACGTcount: A:0.28, C:0.23, G:0.09, T:0.40
Consensus pattern (27 bp):
TACCCTCGATTTACAAAATTACTGTTT
Found at i:25614498 original size:27 final size:27
Alignment explanation
Indices: 25614468--25614667 Score: 192
Period size: 27 Copynumber: 7.4 Consensus size: 27
25614458 TATAGGGTAG
*
25614468 AATTACCAAAATACCCCTGATTTGTGA
1 AATTACCAAAATACCCCTGATTTGTAA
* *
25614495 AATTACTAAAATA-CCCTCGACTTGTAA
1 AATTACCAAAATACCCCT-GATTTGTAA
* ** * **
25614522 AATTACCAAAGTACCATTGGTTTACAA
1 AATTACCAAAATACCCCTGATTTGTAA
25614549 AATTACCAAAATACCCCT-AGTTTGTAA
1 AATTACCAAAATACCCCTGA-TTTGTAA
*
25614576 AATTACCAAAATACCCCTGATTTGTGA
1 AATTACCAAAATACCCCTGATTTGTAA
* **
25614603 AATTACCAAAATA-CCCTCAGTTTCCAA
1 AATTACCAAAATACCCCTGA-TTTGTAA
**
25614630 AATTACTGAAATA-CCCTCGATTTGTAAA
1 AATTACCAAAATACCCCT-GATTTGT-AA
25614658 AATTACCAAA
1 AATTACCAAA
25614668 GTATCCCGAA
Statistics
Matches: 137, Mismatches: 29, Indels: 13
0.77 0.16 0.07
Matches are distributed among these distances:
26 9 0.07
27 114 0.83
28 14 0.10
ACGTcount: A:0.41, C:0.22, G:0.09, T:0.29
Consensus pattern (27 bp):
AATTACCAAAATACCCCTGATTTGTAA
Found at i:25614559 original size:81 final size:81
Alignment explanation
Indices: 25614468--25614667 Score: 244
Period size: 81 Copynumber: 2.5 Consensus size: 81
25614458 TATAGGGTAG
* *
25614468 AATTACCAAAATACCCCTGATTTGTGAAATTACTAAAATA-CCCTCGACTTGTAAAATTACCAAA
1 AATTACCAAAATACCCCTGATTTGTAAAATTACCAAAATACCCCT-GACTTGTAAAATTACCAAA
* **
25614532 GTACCATTGGTTTACAA
65 ATACCATCAGTTTACAA
* *
25614549 AATTACCAAAATACCCCT-AGTTTGTAAAATTACCAAAATACCCCTGATTTGTGAAATTACCAAA
1 AATTACCAAAATACCCCTGA-TTTGTAAAATTACCAAAATACCCCTGACTTGTAAAATTACCAAA
* *
25614613 ATACCCTCAGTTTCCAA
65 ATACCATCAGTTTACAA
**
25614630 AATTACTGAAATA-CCCTCGATTTGTAAAAATTACCAAA
1 AATTACCAAAATACCCCT-GATTTGT-AAAATTACCAAA
25614668 GTATCCCGAA
Statistics
Matches: 103, Mismatches: 11, Indels: 9
0.84 0.09 0.07
Matches are distributed among these distances:
80 5 0.05
81 81 0.79
82 17 0.17
ACGTcount: A:0.41, C:0.22, G:0.09, T:0.29
Consensus pattern (81 bp):
AATTACCAAAATACCCCTGATTTGTAAAATTACCAAAATACCCCTGACTTGTAAAATTACCAAAA
TACCATCAGTTTACAA
Found at i:25614625 original size:54 final size:54
Alignment explanation
Indices: 25614468--25614667 Score: 217
Period size: 54 Copynumber: 3.7 Consensus size: 54
25614458 TATAGGGTAG
* * *
25614468 AATTACCAAAATACCCCTGATTTGTGAAATTACTAAAATACCCTC-GACTTGTAA
1 AATTACCAAAATACCCCTGATTTGTAAAATTACCAAAATACCCTCAG-TTTGTAA
* ** * **
25614522 AATTACCAAAGTACCATTGGTTTACAAAATTACCAAAATACCC-CTAGTTTGTAA
1 AATTACCAAAATACCCCTGATTTGTAAAATTACCAAAATACCCTC-AGTTTGTAA
* **
25614576 AATTACCAAAATACCCCTGATTTGTGAAATTACCAAAATACCCTCAGTTTCCAA
1 AATTACCAAAATACCCCTGATTTGTAAAATTACCAAAATACCCTCAGTTTGTAA
**
25614630 AATTACTGAAATA-CCCTCGATTTGTAAAAATTACCAAA
1 AATTACCAAAATACCCCT-GATTTGT-AAAATTACCAAA
25614668 GTATCCCGAA
Statistics
Matches: 120, Mismatches: 21, Indels: 9
0.80 0.14 0.06
Matches are distributed among these distances:
53 5 0.04
54 102 0.85
55 13 0.11
ACGTcount: A:0.41, C:0.22, G:0.09, T:0.29
Consensus pattern (54 bp):
AATTACCAAAATACCCCTGATTTGTAAAATTACCAAAATACCCTCAGTTTGTAA
Found at i:25614726 original size:27 final size:27
Alignment explanation
Indices: 25614611--25614728 Score: 73
Period size: 27 Copynumber: 4.3 Consensus size: 27
25614601 GAAATTACCA
*
25614611 AAATACCCTC-AGTTTCCAAAATTACTG
1 AAATACCCTCGAGTTTACAAAATTA-TG
* **
25614638 AAATACCCTCGATTTGTA-AAAATTACC
1 AAATACCCTCGAGTT-TACAAAATTATG
* * *
25614665 AAAGTATCC-CGAATTTACAAAATTAAAG
1 AAA-TACCCTCGAGTTTACAAAATT-ATG
***
25614693 TTTTACCCTCGA-TTTACAAAATTATTG
1 AAATACCCTCGAGTTTACAAAATTA-TG
25614720 AAATACCCT
1 AAATACCCT
25614729 TGTAGGGTAG
Statistics
Matches: 68, Mismatches: 16, Indels: 14
0.69 0.16 0.14
Matches are distributed among these distances:
26 3 0.04
27 46 0.68
28 18 0.26
29 1 0.01
ACGTcount: A:0.40, C:0.21, G:0.08, T:0.31
Consensus pattern (27 bp):
AAATACCCTCGAGTTTACAAAATTATG
Found at i:25614742 original size:27 final size:27
Alignment explanation
Indices: 25614719--25614853 Score: 191
Period size: 27 Copynumber: 5.0 Consensus size: 27
25614709 CAAAATTATT
25614719 GAAATACCCTTGTAGGGTAGAATTACC
1 GAAATACCCTTGTAGGGTAGAATTACC
*
25614746 GAAATACCCCTGTAGGGTAGAATTACC
1 GAAATACCCTTGTAGGGTAGAATTACC
* *
25614773 GAAATACCATTGTAGGGTAGAAATACC
1 GAAATACCCTTGTAGGGTAGAATTACC
*
25614800 GAAATA-CCTCTGTAGGGTAGAATTATC
1 GAAATACCCT-TGTAGGGTAGAATTACC
* * *
25614827 GAGATACCCTTGTGGGGTAAAATTACC
1 GAAATACCCTTGTAGGGTAGAATTACC
25614854 ATTTTGCCCC
Statistics
Matches: 95, Mismatches: 11, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
26 2 0.02
27 90 0.95
28 3 0.03
ACGTcount: A:0.34, C:0.18, G:0.23, T:0.25
Consensus pattern (27 bp):
GAAATACCCTTGTAGGGTAGAATTACC
Found at i:25618204 original size:29 final size:27
Alignment explanation
Indices: 25618170--25618240 Score: 81
Period size: 30 Copynumber: 2.6 Consensus size: 27
25618160 AAATCAACCA
* *
25618170 GCACACTTAGTGCCATGTACTTTAAACTC
1 GCACACTTAGTGCCATGCA-TTTAAA-GC
*
25618199 GCACACTTTAGTGCCATGCATTTCAAGC
1 GCACAC-TTAGTGCCATGCATTTAAAGC
25618227 -CACACTTAGTGCCA
1 GCACACTTAGTGCCA
25618241 ATCTCACAAC
Statistics
Matches: 38, Mismatches: 3, Indels: 5
0.83 0.07 0.11
Matches are distributed among these distances:
26 9 0.24
27 5 0.13
28 1 0.03
29 11 0.29
30 12 0.32
ACGTcount: A:0.27, C:0.30, G:0.15, T:0.28
Consensus pattern (27 bp):
GCACACTTAGTGCCATGCATTTAAAGC
Found at i:25625751 original size:76 final size:76
Alignment explanation
Indices: 25625664--25625814 Score: 302
Period size: 76 Copynumber: 2.0 Consensus size: 76
25625654 AGAGCAAGGG
25625664 ATTCCAGCACAACAAAAGTATAGCATTCATGTAGCTAAACGGATAATTTCATATGCACAATTTTT
1 ATTCCAGCACAACAAAAGTATAGCATTCATGTAGCTAAACGGATAATTTCATATGCACAATTTTT
25625729 CAATATCATAA
66 CAATATCATAA
25625740 ATTCCAGCACAACAAAAGTATAGCATTCATGTAGCTAAACGGATAATTTCATATGCACAATTTTT
1 ATTCCAGCACAACAAAAGTATAGCATTCATGTAGCTAAACGGATAATTTCATATGCACAATTTTT
25625805 CAATATCATA
66 CAATATCATA
25625815 CTTACTTCAC
Statistics
Matches: 75, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
76 75 1.00
ACGTcount: A:0.40, C:0.19, G:0.11, T:0.30
Consensus pattern (76 bp):
ATTCCAGCACAACAAAAGTATAGCATTCATGTAGCTAAACGGATAATTTCATATGCACAATTTTT
CAATATCATAA
Found at i:25626089 original size:40 final size:39
Alignment explanation
Indices: 25626052--25626184 Score: 196
Period size: 40 Copynumber: 3.3 Consensus size: 39
25626042 GCTACTCGTT
* *
25626052 CAAATGCCTTCGGGACATAGCCC-ATTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGA-TT-TAGTAACTCGCA
*
25626092 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGTA
1 CAAATGCCTTCGGGACTTAACCC-GATTTAGTAACTCGCA
25626132 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCC-GATTTAGTAACTCGCA
25626172 CAAATGCCTTCGG
1 CAAATGCCTTCGG
25626185 ATCTTAGTCT
Statistics
Matches: 87, Mismatches: 4, Indels: 4
0.92 0.04 0.04
Matches are distributed among these distances:
40 84 0.97
41 2 0.02
42 1 0.01
ACGTcount: A:0.28, C:0.27, G:0.20, T:0.26
Consensus pattern (39 bp):
CAAATGCCTTCGGGACTTAACCCGATTTAGTAACTCGCA
Found at i:25626164 original size:80 final size:79
Alignment explanation
Indices: 25626019--25626190 Score: 224
Period size: 80 Copynumber: 2.2 Consensus size: 79
25626009 AAATCACGTA
* * *
25626019 CCTTCGGAATTTAACCGGATATAGCTACTCGTTCAAATGCCTTCGGGACATAGCCCATTTATAGT
1 CCTTCGGAACTTAACCGGATATAGCTACTCGTACAAATGCCTTCGGGACATAACCCATTTATAGT
25626084 AACTCGCACAAATG
66 AACTCGCACAAATG
* * *
25626098 CCTTCGGGACTTAACCCGGATTTAG-TAACTCGTACAAATGCCTTCGGGACTTAACCCGGA-TT-
1 CCTTCGGAACTTAA-CCGGATATAGCT-ACTCGTACAAATGCCTTCGGGACATAACCC--ATTTA
25626160 TAGTAACTCGCACAAATG
62 TAGTAACTCGCACAAATG
*
25626178 CCTTCGGATCTTA
1 CCTTCGGAACTTA
25626191 GTCTTGATAT
Statistics
Matches: 81, Mismatches: 8, Indels: 7
0.84 0.08 0.07
Matches are distributed among these distances:
79 13 0.16
80 65 0.80
81 2 0.02
82 1 0.01
ACGTcount: A:0.27, C:0.26, G:0.19, T:0.28
Consensus pattern (79 bp):
CCTTCGGAACTTAACCGGATATAGCTACTCGTACAAATGCCTTCGGGACATAACCCATTTATAGT
AACTCGCACAAATG
Found at i:25630987 original size:49 final size:49
Alignment explanation
Indices: 25630856--25631037 Score: 197
Period size: 50 Copynumber: 3.7 Consensus size: 49
25630846 ATCGGTATGT
* * * * *
25630856 ACATATGTGATGTTGTATTGGATCTTGAATATTCGGCCATGAAGGTATGC
1 ACATATGTGATATTATATTTGATCTTGTATATTCGGCCAT-AAGGTAAGC
* * * *
25630906 ACAAATGTGATATTATATTTGAACCTGTATATTAGGCCATATAGGTAAG-
1 ACATATGTGATATTATATTTGATCTTGTATATTCGGCCATA-AGGTAAGC
* * *
25630955 ACATATGTGATAGTAAATTTGATCTTGCATATTCGGCCATAAGGGTAAGC
1 ACATATGTGATATTATATTTGATCTTGTATATTCGGCCATAA-GGTAAGC
*
25631005 ACTTATGT-ACTATTATATTTGATCTTGTATATT
1 ACATATGTGA-TATTATATTTGATCTTGTATATT
25631038 TGGAGGAATG
Statistics
Matches: 108, Mismatches: 20, Indels: 8
0.79 0.15 0.06
Matches are distributed among these distances:
48 1 0.01
49 42 0.39
50 65 0.60
ACGTcount: A:0.31, C:0.12, G:0.20, T:0.38
Consensus pattern (49 bp):
ACATATGTGATATTATATTTGATCTTGTATATTCGGCCATAAGGTAAGC
Found at i:25633001 original size:27 final size:27
Alignment explanation
Indices: 25632862--25633002 Score: 183
Period size: 27 Copynumber: 5.2 Consensus size: 27
25632852 GGGTAAAATG
* **
25632862 GTAATTTTACCCTACAAGGGTATCCCA
1 GTAATTCTACCCTACAAGGGTATTTCA
*
25632889 GTAATTCTACCCTACAGGGGTATTTCA
1 GTAATTCTACCCTACAAGGGTATTTCA
**
25632916 GTAATTCTACCCTACAAGGGTATTTTG
1 GTAATTCTACCCTACAAGGGTATTTCA
* **
25632943 GTAATTCTATCCTACAAGGGTATTTTG
1 GTAATTCTACCCTACAAGGGTATTTCA
*
25632970 GTAATTCTACCTTACAAGGGTATTTCA
1 GTAATTCTACCCTACAAGGGTATTTCA
*
25632997 ATAATT
1 GTAATT
25633003 TTGTAAATTG
Statistics
Matches: 101, Mismatches: 13, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 101 1.00
ACGTcount: A:0.28, C:0.19, G:0.16, T:0.36
Consensus pattern (27 bp):
GTAATTCTACCCTACAAGGGTATTTCA
Found at i:25633016 original size:27 final size:27
Alignment explanation
Indices: 25632986--25633599 Score: 329
Period size: 27 Copynumber: 22.7 Consensus size: 27
25632976 CTACCTTACA
* * *
25632986 AGGGTATTTCAATAATTTTGTAAATTG
1 AGGGTATTTCAGTAATTTTATAAATCG
** * *
25633013 AGGGTAAAAT-GGTAATTCTATAAATCG
1 AGGGT-ATTTCAGTAATTTTATAAATCG
* *
25633040 GGGGTACTTT-GGTAATTTT-TACAAGTCG
1 AGGGTA-TTTCAGTAATTTTATA-AA-TCG
* *
25633068 AGGGTATTTCAGTAATTTTACAAATTG
1 AGGGTATTTCAGTAATTTTATAAATCG
*
25633095 AGGGTATTTCAGTAATTTTGTAAA-CTG
1 AGGGTATTTCAGTAATTTTATAAATC-G
* * * *
25633122 AGGGTATTTTAGTAATTTCACAAATCA
1 AGGGTATTTCAGTAATTTTATAAATCG
** * *
25633149 AGGGTATTTTGGTAATTTTACAAA-CC
1 AGGGTATTTCAGTAATTTTATAAATCG
** * * *
25633175 AGGGGTATTTTGGTAATTTTGTAAACCA
1 A-GGGTATTTCAGTAATTTTATAAATCG
* *
25633203 AGGGTATTTTC-GTAATTTTACAAGTCG
1 AGGGTA-TTTCAGTAATTTTATAAATCG
* *
25633230 AGGGTATTTCAGTAATTTTACAAATTG
1 AGGGTATTTCAGTAATTTTATAAATCG
*
25633257 AGGGTATTTCAGTAATTTTGTAAA-CTG
1 AGGGTATTTCAGTAATTTTATAAATC-G
* * * *
25633284 AGGGTATTTTAGTAATTTCACAAATCA
1 AGGGTATTTCAGTAATTTTATAAATCG
** * *
25633311 AGGGTATTTTGGTAATTTTACAAA-CC
1 AGGGTATTTCAGTAATTTTATAAATCG
** * * *
25633337 AGGGGTATTTTGGTAATTTTGTAAACCA
1 A-GGGTATTTCAGTAATTTTATAAATCG
* *
25633365 AGGGTATTTTC-GTAATTTTACAAGTCG
1 AGGGTA-TTTCAGTAATTTTATAAATCG
* * * *
25633392 AGGGTATTTCAATAATTTCACAAAT-T
1 AGGGTATTTCAGTAATTTTATAAATCG
** * *
25633418 AGGGGTATTTTGGTAATTTTACAAGTCG
1 A-GGGTATTTCAGTAATTTTATAAATCG
* * *
25633446 AGGGTATTTCAATAATTTCACAAATC-
1 AGGGTATTTCAGTAATTTTATAAATCG
** * *
25633472 AGGCGTATTTTGGTAATTTCATAAA-CT
1 AGG-GTATTTCAGTAATTTTATAAATCG
** * *
25633499 AGGGGTATTTTGGTAATTTTACAAA-CT
1 A-GGGTATTTCAGTAATTTTATAAATCG
** * *
25633526 AGGGGTATTTTTGGTAATTTTACAAA-CT
1 A-GGGTA-TTTCAGTAATTTTATAAATCG
* * *
25633554 AGGGGTATTTTAGTAATTTTACAAATTG
1 A-GGGTATTTCAGTAATTTTATAAATCG
* *
25633582 AGGGCATTTTAGTAATTT
1 AGGGTATTTCAGTAATTT
25633600 GGTAAACTAA
Statistics
Matches: 480, Mismatches: 82, Indels: 50
0.78 0.13 0.08
Matches are distributed among these distances:
26 20 0.04
27 396 0.82
28 63 0.13
29 1 0.00
ACGTcount: A:0.31, C:0.09, G:0.21, T:0.40
Consensus pattern (27 bp):
AGGGTATTTCAGTAATTTTATAAATCG
Found at i:25633139 original size:54 final size:53
Alignment explanation
Indices: 25633041--25633599 Score: 441
Period size: 54 Copynumber: 10.3 Consensus size: 53
25633031 TATAAATCGG
* * * *
25633041 GGGTACTTTGGTAATTTTTACAAGTCGAGGGTATTTCAGTAATTTTACAAATTGA
1 GGGTATTTTGGTAATTTTTA-AACT-GAGGGTATTTTAGTAATTTTACAAATTAA
** * *
25633096 GGGTATTTCAGTAATTTTGTAAACTGAGGGTATTTTAGTAATTTCACAAATCAA
1 GGGTATTTTGGTAATTTT-TAAACTGAGGGTATTTTAGTAATTTTACAAATTAA
* * * ** **
25633150 GGGTATTTTGGTAATTTTACAAAC-CAGGGGTATTTTGGTAATTTTGTAAACCAA
1 GGGTATTTTGGTAATTTT-TAAACTGA-GGGTATTTTAGTAATTTTACAAATTAA
* * * *
25633204 GGGTATTTTCGTAA-TTTTACAAGTCGAGGGTATTTCAGTAATTTTACAAATTGA
1 GGGTATTTTGGTAATTTTTA-AACT-GAGGGTATTTTAGTAATTTTACAAATTAA
** * *
25633258 GGGTATTTCAGTAATTTTGTAAACTGAGGGTATTTTAGTAATTTCACAAATCAA
1 GGGTATTTTGGTAATTTT-TAAACTGAGGGTATTTTAGTAATTTTACAAATTAA
* * * ** **
25633312 GGGTATTTTGGTAATTTTACAAAC-CAGGGGTATTTTGGTAATTTTGTAAACCAA
1 GGGTATTTTGGTAATTTT-TAAACTGA-GGGTATTTTAGTAATTTTACAAATTAA
* * * * * *
25633366 GGGTATTTTCGTAA-TTTTACAAGTCGAGGGTATTTCAATAATTTCACAAATTAG
1 GGGTATTTTGGTAATTTTTA-AACT-GAGGGTATTTTAGTAATTTTACAAATTAA
* * * * *
25633420 GGGTATTTTGGTAA-TTTTACAAGTCGAGGGTATTTCAATAATTTCACAAA-TCA
1 GGGTATTTTGGTAATTTTTA-AACT-GAGGGTATTTTAGTAATTTTACAAATTAA
* * * *
25633473 GGCGTATTTTGGTAATTTCATAAACT-AGGGGTATTTTGGTAATTTTACAAACTAG
1 GG-GTATTTTGGTAATTT-TTAAACTGA-GGGTATTTTAGTAATTTTACAAATTAA
* *
25633528 GGGTATTTTTGGTAATTTTACAAACT-AGGGGTATTTTAGTAATTTTACAAATTGA
1 GGGTA-TTTTGGTAATTTT-TAAACTGA-GGGTATTTTAGTAATTTTACAAATTAA
* *
25633583 GGGCATTTTAGTAATTT
1 GGGTATTTTGGTAATTT
25633600 GGTAAACTAA
Statistics
Matches: 408, Mismatches: 78, Indels: 37
0.78 0.15 0.07
Matches are distributed among these distances:
52 2 0.00
53 16 0.04
54 304 0.75
55 80 0.20
56 6 0.01
ACGTcount: A:0.31, C:0.09, G:0.20, T:0.40
Consensus pattern (53 bp):
GGGTATTTTGGTAATTTTTAAACTGAGGGTATTTTAGTAATTTTACAAATTAA
Found at i:25633266 original size:162 final size:162
Alignment explanation
Indices: 25633041--25633607 Score: 829
Period size: 162 Copynumber: 3.5 Consensus size: 162
25633031 TATAAATCGG
* *
25633041 GGGTACTTTGGTAATTTTTACAAGTCGAGGGTATTTCAGTAATTTTACAAATTGAGGGTATTTCA
1 GGGTATTTTCGTAA-TTTTACAAGTCGAGGGTATTTCAGTAATTTTACAAATTGAGGGTATTTCA
25633106 GTAATTTTGTAAACTGAGGGTATTTTAGTAATTTCACAAATCAAGGGTATTTTGGTAATTTTACA
65 GTAATTTTGTAAACTGAGGGTATTTTAGTAATTTCACAAATCAAGGGTATTTTGGTAATTTTACA
25633171 AACCAGGGGTATTTTGGTAATTTTGTAAACCAA
130 AACCAGGGGTATTTTGGTAATTTTGTAAACCAA
25633204 GGGTATTTTCGTAATTTTACAAGTCGAGGGTATTTCAGTAATTTTACAAATTGAGGGTATTTCAG
1 GGGTATTTTCGTAATTTTACAAGTCGAGGGTATTTCAGTAATTTTACAAATTGAGGGTATTTCAG
25633269 TAATTTTGTAAACTGAGGGTATTTTAGTAATTTCACAAATCAAGGGTATTTTGGTAATTTTACAA
66 TAATTTTGTAAACTGAGGGTATTTTAGTAATTTCACAAATCAAGGGTATTTTGGTAATTTTACAA
25633334 ACCAGGGGTATTTTGGTAATTTTGTAAACCAA
131 ACCAGGGGTATTTTGGTAATTTTGTAAACCAA
* * **
25633366 GGGTATTTTCGTAATTTTACAAGTCGAGGGTATTTCAATAATTTCACAAATT-AGGGGTATTTTG
1 GGGTATTTTCGTAATTTTACAAGTCGAGGGTATTTCAGTAATTTTACAAATTGA-GGGTATTTCA
* * * *
25633430 GTAA-TTT-TACAAGTCGAGGGTATTTCAATAATTTCACAAATC-AGGCGTATTTTGGTAATTTC
65 GTAATTTTGTA-AACT-GAGGGTATTTTAGTAATTTCACAAATCAAGG-GTATTTTGGTAATTTT
* * ** * *
25633492 ATAAACTAGGGGTATTTTGGTAATTTTACAAACTAG
127 ACAAACCAGGGGTATTTTGGTAATTTTGTAAACCAA
* * * * * *
25633528 GGGTATTTTTGGTAATTTTACAA-ACTAGGGGTATTTTAGTAATTTTACAAATTGAGGGCATTTT
1 GGGTA-TTTTCGTAATTTTACAAGTCGA-GGGTATTTCAGTAATTTTACAAATTGAGGGTATTTC
*
25633592 AGTAATTTGGTAAACT
64 AGTAATTTTGTAAACT
25633608 AAAGTATTCT
Statistics
Matches: 369, Mismatches: 26, Indels: 17
0.90 0.06 0.04
Matches are distributed among these distances:
160 2 0.01
161 10 0.03
162 287 0.78
163 62 0.17
164 6 0.02
165 2 0.01
ACGTcount: A:0.31, C:0.09, G:0.20, T:0.40
Consensus pattern (162 bp):
GGGTATTTTCGTAATTTTACAAGTCGAGGGTATTTCAGTAATTTTACAAATTGAGGGTATTTCAG
TAATTTTGTAAACTGAGGGTATTTTAGTAATTTCACAAATCAAGGGTATTTTGGTAATTTTACAA
ACCAGGGGTATTTTGGTAATTTTGTAAACCAA
Found at i:25639126 original size:28 final size:28
Alignment explanation
Indices: 25639094--25639147 Score: 108
Period size: 28 Copynumber: 1.9 Consensus size: 28
25639084 GTGTTGCACT
25639094 GAAGGACAAGGGCTTATAAATAAAACCC
1 GAAGGACAAGGGCTTATAAATAAAACCC
25639122 GAAGGACAAGGGCTTATAAATAAAAC
1 GAAGGACAAGGGCTTATAAATAAAAC
25639148 TCTTGTGTGA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.48, C:0.15, G:0.22, T:0.15
Consensus pattern (28 bp):
GAAGGACAAGGGCTTATAAATAAAACCC
Found at i:25641649 original size:20 final size:20
Alignment explanation
Indices: 25641612--25641650 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
25641602 AATAATACAC
* *
25641612 TTATACATATATATAACATT
1 TTATACATATACAGAACATT
*
25641632 TTATACATTTACAGAACAT
1 TTATACATATACAGAACAT
25641651 AATTGTATCA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.44, C:0.13, G:0.03, T:0.41
Consensus pattern (20 bp):
TTATACATATACAGAACATT
Found at i:25643802 original size:26 final size:26
Alignment explanation
Indices: 25643773--25643823 Score: 75
Period size: 26 Copynumber: 2.0 Consensus size: 26
25643763 CATATTCAGC
* *
25643773 CATAGCATAATTTAATTATAACATTT
1 CATAGCAGAATGTAATTATAACATTT
*
25643799 CATAGCAGCATGTAATTATAACATT
1 CATAGCAGAATGTAATTATAACATT
25643824 AAACTATCAA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.41, C:0.14, G:0.08, T:0.37
Consensus pattern (26 bp):
CATAGCAGAATGTAATTATAACATTT
Found at i:25651133 original size:6 final size:6
Alignment explanation
Indices: 25651103--25651171 Score: 61
Period size: 6 Copynumber: 11.3 Consensus size: 6
25651093 AAGAAACATT
* * *
25651103 ATCAGA A-CTAGA ATCAAA ATGAGA ATCAGA ATTAGA ATCAGA ATCAG-
1 ATCAGA ATC-AGA ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA
*
25651150 GTGACAGA ATCAGA ATCAGA AT
1 AT--CAGA ATCAGA ATCAGA AT
25651172 TAGGTGACAG
Statistics
Matches: 50, Mismatches: 8, Indels: 10
0.74 0.12 0.15
Matches are distributed among these distances:
5 2 0.04
6 43 0.86
7 4 0.08
8 1 0.02
ACGTcount: A:0.49, C:0.13, G:0.19, T:0.19
Consensus pattern (6 bp):
ATCAGA
Found at i:25651164 original size:25 final size:25
Alignment explanation
Indices: 25651129--25651221 Score: 123
Period size: 25 Copynumber: 3.7 Consensus size: 25
25651119 AAATGAGAAT
* *
25651129 CAGAATTAGAATCAGAATCAGGTGA
1 CAGAATCAGAATCAGAATTAGGTGA
25651154 CAGAATCAGAATCAGAATTAGGTGA
1 CAGAATCAGAATCAGAATTAGGTGA
* * *
25651179 CAGAACCAGAATCAGTATTAGGTAA
1 CAGAATCAGAATCAGAATTAGGTGA
* *
25651204 CAAAATCAGAATTAGAAT
1 CAGAATCAGAATCAGAAT
25651222 GTGAATGCAA
Statistics
Matches: 59, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 59 1.00
ACGTcount: A:0.46, C:0.13, G:0.20, T:0.20
Consensus pattern (25 bp):
CAGAATCAGAATCAGAATTAGGTGA
Found at i:25652083 original size:27 final size:27
Alignment explanation
Indices: 25652053--25652193 Score: 183
Period size: 27 Copynumber: 5.2 Consensus size: 27
25652043 GGGCAAAATG
* * * *
25652053 GTAATTTTACCCCACAAGGGTATCTCT
1 GTAATTCTACCCTACAAGGGTATTTCA
*
25652080 GTAATTCTACCCTACAGGGGTATTTCA
1 GTAATTCTACCCTACAAGGGTATTTCA
* *
25652107 GTATTTCTACCCTACAAGGGTATTTCG
1 GTAATTCTACCCTACAAGGGTATTTCA
* * *
25652134 GTAATTCTACCTTATAGGGGTATTTCA
1 GTAATTCTACCCTACAAGGGTATTTCA
25652161 GTAATTCTACCCTACAAGGGTATTTCA
1 GTAATTCTACCCTACAAGGGTATTTCA
*
25652188 ATAATT
1 GTAATT
25652194 TTGTAAATCG
Statistics
Matches: 97, Mismatches: 17, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 97 1.00
ACGTcount: A:0.27, C:0.21, G:0.16, T:0.36
Consensus pattern (27 bp):
GTAATTCTACCCTACAAGGGTATTTCA
Found at i:25652184 original size:54 final size:54
Alignment explanation
Indices: 25652053--25652186 Score: 205
Period size: 54 Copynumber: 2.5 Consensus size: 54
25652043 GGGCAAAATG
* * * *
25652053 GTAATTTTACCCCACAAGGGTATCTCTGTAATTCTACCCTACAGGGGTATTTCA
1 GTAATTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCA
* * *
25652107 GTATTTCTACCCTACAAGGGTATTTCGGTAATTCTACCTTATAGGGGTATTTCA
1 GTAATTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCA
25652161 GTAATTCTACCCTACAAGGGTATTTC
1 GTAATTCTACCCTACAAGGGTATTTC
25652187 AATAATTTTG
Statistics
Matches: 72, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
54 72 1.00
ACGTcount: A:0.25, C:0.22, G:0.17, T:0.36
Consensus pattern (54 bp):
GTAATTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCA
Done.