Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr5
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: 55438857
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1812582 characters in sequence are not A, C, G, or T
File 108 of 167
Found at i:35911515 original size:24 final size:24
Alignment explanation
Indices: 35911488--35911542 Score: 65
Period size: 24 Copynumber: 2.3 Consensus size: 24
35911478 TCTCGATTAA
*
35911488 TGGCTCTCCGGAACTTCCTAATAT
1 TGGCTCGCCGGAACTTCCTAATAT
** * *
35911512 TGGCTCGCTTGAACTTCTTGATAT
1 TGGCTCGCCGGAACTTCCTAATAT
35911536 TGGCTCG
1 TGGCTCG
35911543 TTTGAGCTTC
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.16, C:0.25, G:0.22, T:0.36
Consensus pattern (24 bp):
TGGCTCGCCGGAACTTCCTAATAT
Found at i:35911547 original size:24 final size:24
Alignment explanation
Indices: 35911498--35911553 Score: 76
Period size: 24 Copynumber: 2.3 Consensus size: 24
35911488 TGGCTCTCCG
*
35911498 GAACTTCCTAATATTGGCTCGCTT
1 GAACTTCTTAATATTGGCTCGCTT
* *
35911522 GAACTTCTTGATATTGGCTCGTTT
1 GAACTTCTTAATATTGGCTCGCTT
*
35911546 GAGCTTCT
1 GAACTTCT
35911554 CGTTACATGG
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.18, C:0.21, G:0.20, T:0.41
Consensus pattern (24 bp):
GAACTTCTTAATATTGGCTCGCTT
Found at i:35913091 original size:25 final size:23
Alignment explanation
Indices: 35913039--35913093 Score: 58
Period size: 25 Copynumber: 2.3 Consensus size: 23
35913029 TATAAATAGT
35913039 AATAGTGTTAGAAATATACTATA
1 AATAGTGTTAGAAATATACTATA
* *
35913062 TATAGTGTTTGAAGTATATAC-ATAA
1 AATAGTGTTAGAA--ATATACTAT-A
35913087 AATAGTG
1 AATAGTG
35913094 AAAATATAAC
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
23 11 0.42
24 2 0.08
25 13 0.50
ACGTcount: A:0.44, C:0.04, G:0.16, T:0.36
Consensus pattern (23 bp):
AATAGTGTTAGAAATATACTATA
Found at i:35913175 original size:22 final size:22
Alignment explanation
Indices: 35913149--35913223 Score: 69
Period size: 22 Copynumber: 3.3 Consensus size: 22
35913139 TATAAAATAG
*
35913149 ATATAAAAAAAATATGTACATA
1 ATATAAAAAAAATATATACATA
* *
35913171 ATATAGTGTAAAAAATACATACATA
1 ATATA---AAAAAAATATATACATA
**
35913196 ATATAATTAAAATATATACATA
1 ATATAAAAAAAATATATACATA
*
35913218 AGATAA
1 ATATAA
35913224 CATGTTTAAA
Statistics
Matches: 42, Mismatches: 8, Indels: 6
0.75 0.14 0.11
Matches are distributed among these distances:
22 23 0.55
25 19 0.45
ACGTcount: A:0.60, C:0.05, G:0.05, T:0.29
Consensus pattern (22 bp):
ATATAAAAAAAATATATACATA
Found at i:35913193 original size:25 final size:24
Alignment explanation
Indices: 35913155--35913217 Score: 72
Period size: 25 Copynumber: 2.5 Consensus size: 24
35913145 ATAGATATAA
** *
35913155 AAAAAATATGTACATAATATAGTGT
1 AAAAAATACATACATAATATAAT-T
35913180 AAAAAATACATACATAATATAATT
1 AAAAAATACATACATAATATAATT
35913204 AAAATATATACATA
1 AAAA-A-ATACATA
35913218 AGATAACATG
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
24 5 0.15
25 21 0.64
26 7 0.21
ACGTcount: A:0.59, C:0.06, G:0.05, T:0.30
Consensus pattern (24 bp):
AAAAAATACATACATAATATAATT
Found at i:35913290 original size:23 final size:24
Alignment explanation
Indices: 35913239--35913347 Score: 82
Period size: 23 Copynumber: 4.7 Consensus size: 24
35913229 TTAAAAAAAA
*
35913239 ATATATAAATAATATAGTATCCAAG
1 ATATATACATAATATAGTAT-CAAG
* *
35913264 ATATATACATAAAATAGTAT-AAT
1 ATATATACATAATATAGTATCAAG
* * **
35913287 ATATATACGTAATATAGAATTTAG
1 ATATATACATAATATAGTATCAAG
* * *
35913311 A-ATATACCTAATATATTA-AAAG
1 ATATATACATAATATAGTATCAAG
*
35913333 A-ATATATATAATATA
1 ATATATACATAATATA
35913348 ATATTAAAAA
Statistics
Matches: 68, Mismatches: 15, Indels: 5
0.77 0.17 0.06
Matches are distributed among these distances:
22 15 0.22
23 33 0.49
24 2 0.03
25 18 0.26
ACGTcount: A:0.53, C:0.06, G:0.06, T:0.35
Consensus pattern (24 bp):
ATATATACATAATATAGTATCAAG
Found at i:35913689 original size:16 final size:16
Alignment explanation
Indices: 35913651--35913689 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
35913641 CTCCAAAAAA
*
35913651 AAAAACTAGCCTCTCC
1 AAAAACTAGCCTCTAC
*
35913667 AAAAACTAGCCTTTAC
1 AAAAACTAGCCTCTAC
*
35913683 AATAACT
1 AAAAACT
35913690 CTTCTCCTTG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.44, C:0.28, G:0.05, T:0.23
Consensus pattern (16 bp):
AAAAACTAGCCTCTAC
Found at i:35913875 original size:18 final size:18
Alignment explanation
Indices: 35913852--35913905 Score: 57
Period size: 18 Copynumber: 3.3 Consensus size: 18
35913842 ACAAGTGGTG
35913852 GTGGAGCAAGTGTGGCTA
1 GTGGAGCAAGTGTGGCTA
*
35913870 GTGGAG-TAG-GT-G---
1 GTGGAGCAAGTGTGGCTA
35913882 GTGGAGCAAGTGTGGCTA
1 GTGGAGCAAGTGTGGCTA
35913900 GTGGAG
1 GTGGAG
35913906 TTGGTGGTGG
Statistics
Matches: 28, Mismatches: 2, Indels: 12
0.67 0.05 0.29
Matches are distributed among these distances:
12 6 0.21
13 2 0.07
14 2 0.07
15 2 0.07
16 2 0.07
17 2 0.07
18 12 0.43
ACGTcount: A:0.20, C:0.07, G:0.50, T:0.22
Consensus pattern (18 bp):
GTGGAGCAAGTGTGGCTA
Found at i:35913884 original size:30 final size:30
Alignment explanation
Indices: 35913847--35913941 Score: 153
Period size: 30 Copynumber: 3.3 Consensus size: 30
35913837 TAGGTACAAG
35913847 TGGTGGTGGAGCAAGTGTGGCTAGTGGAGT
1 TGGTGGTGGAGCAAGTGTGGCTAGTGGAGT
*
35913877 AGGTGGTGGAGCAAGTGTGGCTAGTGGAGT
1 TGGTGGTGGAGCAAGTGTGGCTAGTGGAGT
35913907 TGGTGGTGGAGC----GTGGCTAGTGGAGT
1 TGGTGGTGGAGCAAGTGTGGCTAGTGGAGT
35913933 TGGTGGTGG
1 TGGTGGTGG
35913942 CAAAGGCTAG
Statistics
Matches: 63, Mismatches: 2, Indels: 4
0.91 0.03 0.06
Matches are distributed among these distances:
26 23 0.37
30 40 0.63
ACGTcount: A:0.15, C:0.06, G:0.53, T:0.26
Consensus pattern (30 bp):
TGGTGGTGGAGCAAGTGTGGCTAGTGGAGT
Found at i:35914944 original size:86 final size:87
Alignment explanation
Indices: 35914654--35915227 Score: 437
Period size: 91 Copynumber: 6.7 Consensus size: 87
35914644 ACGTAAGCCA
* * *
35914654 AGGCTCAACTCACTTCTCGTAATATGAGTTGA--TTTTT-A-AAACA-AAATTTGTAAAACAGAT
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGACAAACATAAA-TTG-AAAA-AGAA
* * * * * *
35914714 TTTAAAAATACCTCGGTATGTGACCCG
63 ATTGAAAATACCTCAG--CGTGTCCTG
* *
35914741 AGGCTCAACTCACCTCTCGTAATATGAGTTGA--TTTTTG-CAAAGCATAAATTGAAAAAAAAAT
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGACAAA-CATAAATTG--AAAAAGA-
* * *
35914803 CAATTGAAAATTCCTCGGCGTGTGATCTG
62 -AATTGAAAATACCTCAGCGTGT--CCTG
* *
35914832 GGGCTCAACTCACCTCTCACAATATGAGTTGATTTTTTTGACAAACATAAATTG-AAAAGAAATT
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGACAAACATAAATTGAAAAAGAAATT
*
35914896 GAAAATATCTCAGCGTGTCCTG
66 GAAAATACCTCAGCGTGTCCTG
* * * *
35914918 AGGCTGAACTCACCTTTCGCAATATGAGTTGATTTTTTGGAAAAACA-AAATTTGAAAAACAGAA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGACAAACATAAA-TTG-AAAA-AGAA
* ** *
35914982 TTTGAAAATACCTCAGCGTGTGAGTCA
63 ATTGAAAATACCTCAGCGTGT-CCT-G
* * *
35915009 AGGCTCAACTCACCACTCGCAATATGAGCTGATTTTTTTGA-AACACAGAAATTGAAGAACAGAA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGACAA-ACATAAATTGAA-AA-AGAA
* * *
35915073 ATGGAAAACACCTCAGC--GTCTTG
63 ATTGAAAATACCTCAGCGTGTCCTG
* *
35915096 AGGTTCAACTCACCTCTCGCAATATGAGCTGA-TTTTTT--------T---TTGAAAGATAGAAA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGACAAACATAAATTGAAA-A-AGAAA
* *
35915149 TTGAAAATACCTCAACGTGTCTTG
64 TTGAAAATACCTCAGCGTGTCCTG
*
35915173 AGGCTCAACTCACCTCTCGCAATATGAGTTGA--TTTTTGACAAACAAAAATTGAAA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGACAAACATAAATTGAAA
35915228 TTACCTCAGC
Statistics
Matches: 401, Mismatches: 51, Indels: 70
0.77 0.10 0.13
Matches are distributed among these distances:
74 1 0.00
75 24 0.06
76 5 0.01
77 36 0.09
85 3 0.01
86 53 0.13
87 72 0.18
88 26 0.06
89 35 0.09
90 17 0.04
91 107 0.27
92 3 0.01
93 15 0.04
94 4 0.01
ACGTcount: A:0.36, C:0.18, G:0.17, T:0.29
Consensus pattern (87 bp):
AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGACAAACATAAATTGAAAAAGAAATT
GAAAATACCTCAGCGTGTCCTG
Found at i:35914989 original size:13 final size:14
Alignment explanation
Indices: 35914957--35914989 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
35914947 TGATTTTTTG
35914957 GAAAAACAAAATTT
1 GAAAAACAAAATTT
*
35914971 GAAAAACAGAATTT
1 GAAAAACAAAATTT
35914985 GAAAA
1 GAAAA
35914990 TACCTCAGCG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.64, C:0.06, G:0.12, T:0.18
Consensus pattern (14 bp):
GAAAAACAAAATTT
Found at i:35915003 original size:177 final size:172
Alignment explanation
Indices: 35914740--35915227 Score: 490
Period size: 177 Copynumber: 2.8 Consensus size: 172
35914730 TATGTGACCC
* *
35914740 GAGGCTCAACTCACCTCTCGTAATATGAGTTGA-TTTTTGCAAAGCATAAA-TTGAAAAAAAAAT
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTG-AAA-CA-AAATTTGAAAAAAGAAT
* * * *
35914803 CAATTGAAAATTCCTCGGCGTGTGATCTGGGGCTCAACTCACCTCTCACAATATGAGTTGATTTT
63 ---TTGAAAATACCTCAGCGTGTGATCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT
* * * *
35914868 TTTGACAAACATAAATTGAAA-AGAAATTGAAAATATCTCAGCGTGTCCT
125 TTTGACAAACAAAAATTGAAACAGAAATGGAAAACACCTCAGC--GTCCT
* *
35914917 GAGGCTGAACTCACCTTTCGCAATATGAGTTGATTTTTTGGAAAAACAAAATTTGAAAAACAGAA
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTT-G--AAACAAAATTTGAAAAA-AGAA
* * *
35914982 TTTGAAAATACCTCAGCGTGTGAGTC-AAGGCTCAACTCACCACTCGCAATATGAGCTGATTTTT
62 TTTGAAAATACCTCAGCGTGTGA-TCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
* *
35915046 TTGA-AACACAGAAATTGAAGAACAGAAATGGAAAACACCTCAGCGTCTT
126 TTGACAA-ACAAAAATTG-A-AACAGAAATGGAAAACACCTCAGCGTCCT
* * * *
35915095 GAGGTTCAACTCACCTCTCGCAATATGAGCTGATTTTTT---------TTTGAAAGATAGAAATT
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAACAAAATTTGAAA-AAAGAATTT
* *
35915151 GAAAATACCTCAACGTGT-CT-TGAGGCTCAACTCACCTCTCGCAATATGAGTTGA--TTTTTGA
65 GAAAATACCTCAGCGTGTGATCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGA
35915212 CAAACAAAAATTGAAA
130 CAAACAAAAATTGAAA
35915228 TTACCTCAGC
Statistics
Matches: 269, Mismatches: 29, Indels: 43
0.79 0.09 0.13
Matches are distributed among these distances:
160 2 0.01
161 1 0.00
162 16 0.06
163 2 0.01
164 31 0.12
166 30 0.11
167 1 0.00
176 2 0.01
177 96 0.36
178 50 0.19
179 13 0.05
180 25 0.09
ACGTcount: A:0.35, C:0.18, G:0.17, T:0.29
Consensus pattern (172 bp):
GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAACAAAATTTGAAAAAAGAATTTG
AAAATACCTCAGCGTGTGATCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAC
AAACAAAAATTGAAACAGAAATGGAAAACACCTCAGCGTCCT
Found at i:35915209 original size:75 final size:75
Alignment explanation
Indices: 35915067--35916692 Score: 2456
Period size: 75 Copynumber: 21.9 Consensus size: 75
35915057 AAATTGAAGA
* *
35915067 ACAGAAATGGAAAACACCTC-A-GCGTCTTGAGGTTCAACTCACCTCTCGCAATATGAGCTGATT
1 ACAGAAATTGAAAACACCTCAACGTGTCTTGAGGTTCAACTCACCTCTCGCAATATGAGCTGA--
*
35915130 TTTTTTTGAAAG
64 TTTTTTTAAAAG
* * * *
35915142 ATAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-T
1 ACAGAAATTGAAAACACCTCAACGTGTCTTGAGGTTCAACTCACCTCTCGCAATATGAGCTGATT
* *
35915206 TTTTGACAA-
66 TTTTTAAAAG
* ** * * * *
35915215 ACAAAAATTGAAATTACCTC-A-GCGTCTTGAGGTTCAACTCACCTATTGCAATATGAGTTGATT
1 ACAGAAATTGAAAACACCTCAACGTGTCTTGAGGTTCAACTCACCTCTCGCAATATGAGCTGATT
35915278 TTTTTGAAAA-
66 TTTTT-AAAAG
* * * *
35915288 ACAGAAATTGAAAATACCTCAACGTGTCTTGAGGTTCAACTCACCTATTGCAATATGAGTTGATT
1 ACAGAAATTGAAAACACCTCAACGTGTCTTGAGGTTCAACTCACCTCTCGCAATATGAGCTGATT
35915353 TTTTTGAAAA-
66 TTTTT-AAAAG
* * *
35915363 ACAGAAATTGAAAATACCTCAACGTGTCTTGAGGTTCAACTCACCTCTCGCAATATGAGTTTA-T
1 ACAGAAATTGAAAACACCTCAACGTGTCTTGAGGTTCAACTCACCTCTCGCAATATGAGCTGATT
* *
35915427 TTTTGAGAA-
66 TTTTTAAAAG
* ** * * * *
35915436 ACAAAAATTGAAATTACCTC-A-GCGTCTTGAGGTTCAACTCACCTATCGCAATACGAGTTGATT
1 ACAGAAATTGAAAACACCTCAACGTGTCTTGAGGTTCAACTCACCTCTCGCAATATGAGCTGATT
35915499 TTTTTGAAAA-
66 TTTTT-AAAAG
* *
35915509 ACAGAAATTGAAAATACCTCAATGTGTCTTGAGGTTCAACTCACCTCTCGCAATATGAGCTGATT
1 ACAGAAATTGAAAACACCTCAACGTGTCTTGAGGTTCAACTCACCTCTCGCAATATGAGCTGATT
35915574 TTTTTAAAAG
66 TTTTTAAAAG
35915584 ACAGAAATTGAAAACACCTCAACGTGTCTTGAGGTTCAACTCACCTCTCGCAATATGAGCTGATT
1 ACAGAAATTGAAAACACCTCAACGTGTCTTGAGGTTCAACTCACCTCTCGCAATATGAGCTGATT
35915649 TTTTTAAAAG
66 TTTTTAAAAG
35915659 ACAGAAATTGAAAACACCTCAACGTGTCTTGAGGTTCAACTCACCTCTCGCAATATGAGCTGATT
1 ACAGAAATTGAAAACACCTCAACGTGTCTTGAGGTTCAACTCACCTCTCGCAATATGAGCTGATT
35915724 TTTTTAAAAG
66 TTTTTAAAAG
35915734 ACAGAAATTGAAAACACCTCAACGTGTCTTGAGGTTCAACTCACCTCTCGCAATATGAGCTGATT
1 ACAGAAATTGAAAACACCTCAACGTGTCTTGAGGTTCAACTCACCTCTCGCAATATGAGCTGATT
35915799 TTTTTAAAAG
66 TTTTTAAAAG
35915809 ACAGAAATTGAAAACACCTCAACGTGTCTTGAGGTTCAACTCACCTCTCGCAATATGAGCTGATT
1 ACAGAAATTGAAAACACCTCAACGTGTCTTGAGGTTCAACTCACCTCTCGCAATATGAGCTGATT
35915874 TTTTTAAAAG
66 TTTTTAAAAG
35915884 ACAGAAATTGAAAACACCTCAACGTGTCTTGAGGTTCAACTCACCTCTCGCAATATGAGCTGATT
1 ACAGAAATTGAAAACACCTCAACGTGTCTTGAGGTTCAACTCACCTCTCGCAATATGAGCTGATT
35915949 TTTTTAAAAG
66 TTTTTAAAAG
35915959 ACAGAAATTGAAAACACCTCAACGTGTCTTGAGGTTCAACTCACCTCTCGCAATATGAGCTGATT
1 ACAGAAATTGAAAACACCTCAACGTGTCTTGAGGTTCAACTCACCTCTCGCAATATGAGCTGATT
35916024 TTTTTAAAAG
66 TTTTTAAAAG
35916034 ACAGAAATTGAAAACACCTCAACGTGTCTTGAGGTTCAACTCACCTCTCGCAATATGAGCTGATT
1 ACAGAAATTGAAAACACCTCAACGTGTCTTGAGGTTCAACTCACCTCTCGCAATATGAGCTGATT
35916099 TTTTTAAAAG
66 TTTTTAAAAG
35916109 ACAGAAATTGAAAACACCTCAACGTGTCTTGAGGTTCAACTCACCTCTCGCAATATGAGCTGATT
1 ACAGAAATTGAAAACACCTCAACGTGTCTTGAGGTTCAACTCACCTCTCGCAATATGAGCTGATT
35916174 TTTTTAAAAG
66 TTTTTAAAAG
35916184 ACAGAAATTGAAAACACCTCAACGTGTCTTGAGGTTCAACTCACCTCTCGCAATATGAGCTGATT
1 ACAGAAATTGAAAACACCTCAACGTGTCTTGAGGTTCAACTCACCTCTCGCAATATGAGCTGATT
35916249 TTTTTAAAAG
66 TTTTTAAAAG
35916259 ACAGAAATTGAAAACACCTCAACGTGTCTTGAGGTTCAACTCACCTCTCGCAATATGAGCTGATT
1 ACAGAAATTGAAAACACCTCAACGTGTCTTGAGGTTCAACTCACCTCTCGCAATATGAGCTGATT
35916324 TTTTTAAAAG
66 TTTTTAAAAG
35916334 ACAGAAATTGAAAACACCTCAACGTGTCTTGAGGTTCAACTCACCTCTCGCAATATGAGCTGATT
1 ACAGAAATTGAAAACACCTCAACGTGTCTTGAGGTTCAACTCACCTCTCGCAATATGAGCTGATT
35916399 TTTTTAAAAG
66 TTTTTAAAAG
* * *
35916409 AC--AAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-T
1 ACAGAAATTGAAAACACCTCAACGTGTCTTGAGGTTCAACTCACCTCTCGCAATATGAGCTGATT
* *
35916471 TTTTGACAA-
66 TTTTTAAAAG
* ** * * * * *
35916480 ACAAAAATTGAAATTACCTCAGCGTGTCCTG-GGCTCAACTCACCTATCGCAATATGAGTTGATT
1 ACAGAAATTGAAAACACCTCAACGTGTCTTGAGGTTCAACTCACCTCTCGCAATATGAGCTGATT
35916544 TTTTTGAAAA-
66 TTTTT-AAAAG
* * * * * *
35916554 ACTGAAATTAAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTTGCAATATGAGTTGA--
1 ACAGAAATTGAAAACACCTCAACGTGTCTTGAGGTTCAACTCACCTCTCGCAATATGAGCTGATT
* *
35916617 GTTTT-GAA-
66 TTTTTAAAAG
** * * * * * *
35916625 A-A-AAATTGAAATTACCTCAGCGTGTCCTAAGGCTCAACTCACTTCTCGCAATATGAGTTGATT
1 ACAGAAATTGAAAACACCTCAACGTGTCTTGAGGTTCAACTCACCTCTCGCAATATGAGCTGATT
35916688 TTTTT
66 TTTTT
35916693 TAGAAACATA
Statistics
Matches: 1461, Mismatches: 72, Indels: 40
0.93 0.05 0.03
Matches are distributed among these distances:
69 52 0.04
71 81 0.06
72 50 0.03
73 169 0.12
74 46 0.03
75 1025 0.70
76 1 0.00
77 37 0.03
ACGTcount: A:0.33, C:0.20, G:0.16, T:0.31
Consensus pattern (75 bp):
ACAGAAATTGAAAACACCTCAACGTGTCTTGAGGTTCAACTCACCTCTCGCAATATGAGCTGATT
TTTTTAAAAG
Found at i:35916966 original size:73 final size:73
Alignment explanation
Indices: 35916805--35916955 Score: 257
Period size: 73 Copynumber: 2.1 Consensus size: 73
35916795 AAGGCAAAAA
* *
35916805 TTGAAAAACAGAAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCACAATATGA
1 TTGAAAAACAGAAATTAAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTCACAATATGA
35916870 GTTGATTT
66 GTTGATTT
* * *
35916878 TTGAAAAACAGAAATTAAAAATACCTCGGCGTGCCCCGAGGCTCAGCTCACCTCTCGCAATATGA
1 TTGAAAAACAGAAATTAAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTCACAATATGA
35916943 GTTGATTT
66 GTTGATTT
35916951 TTGAA
1 TTGAA
35916956 GAGCATAAAT
Statistics
Matches: 73, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
73 73 1.00
ACGTcount: A:0.33, C:0.23, G:0.18, T:0.26
Consensus pattern (73 bp):
TTGAAAAACAGAAATTAAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTCACAATATGA
GTTGATTT
Found at i:35929109 original size:25 final size:23
Alignment explanation
Indices: 35929057--35929111 Score: 58
Period size: 25 Copynumber: 2.3 Consensus size: 23
35929047 TATAAATAGT
35929057 AATAGTGTTAGAAATATACTATA
1 AATAGTGTTAGAAATATACTATA
* *
35929080 TATAGTGTTTGAAGTATATAC-ATAA
1 AATAGTGTTAGAA--ATATACTAT-A
35929105 AATAGTG
1 AATAGTG
35929112 AAAATATAAC
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
23 11 0.42
24 2 0.08
25 13 0.50
ACGTcount: A:0.44, C:0.04, G:0.16, T:0.36
Consensus pattern (23 bp):
AATAGTGTTAGAAATATACTATA
Found at i:35933646 original size:20 final size:20
Alignment explanation
Indices: 35933603--35933650 Score: 57
Period size: 20 Copynumber: 2.5 Consensus size: 20
35933593 GCTATTTTGT
35933603 TATGGGCCAACTGTATTGAA
1 TATGGGCCAACTGTATTGAA
*
35933623 -ATGGGCCCAACTGTGTT-AA
1 TATGGG-CCAACTGTATTGAA
35933642 TAT-GGCCAA
1 TATGGGCCAA
35933651 GGCCCAATAT
Statistics
Matches: 25, Mismatches: 1, Indels: 6
0.78 0.03 0.19
Matches are distributed among these distances:
18 4 0.16
19 9 0.36
20 12 0.48
ACGTcount: A:0.29, C:0.19, G:0.25, T:0.27
Consensus pattern (20 bp):
TATGGGCCAACTGTATTGAA
Found at i:35933717 original size:60 final size:59
Alignment explanation
Indices: 35933670--35933789 Score: 150
Period size: 60 Copynumber: 2.0 Consensus size: 59
35933660 TATCTCGACT
*
35933670 TGTAATAGGGCTACGGCCCAGATTGATACTGATATGGGCTAGGCCCAATAAACTCTGATA
1 TGTAA-AGGGCTACGGCCCAGATTAATACTGATATGGGCTAGGCCCAATAAACTCTGATA
* * * * * *
35933730 CTGTAAGGGGCTATGGCCCAGATTAATATTGATATGGGCTAAGGCCGAATTAACACTGAT
1 -TGTAAAGGGCTACGGCCCAGATTAATACTGATATGGGCT-AGGCCCAATAAACTCTGAT
35933790 TTTTGAATAG
Statistics
Matches: 51, Mismatches: 7, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
60 30 0.59
61 21 0.41
ACGTcount: A:0.30, C:0.18, G:0.26, T:0.26
Consensus pattern (59 bp):
TGTAAAGGGCTACGGCCCAGATTAATACTGATATGGGCTAGGCCCAATAAACTCTGATA
Found at i:35935942 original size:24 final size:24
Alignment explanation
Indices: 35935894--35935945 Score: 63
Period size: 24 Copynumber: 2.2 Consensus size: 24
35935884 CTTTAAATGA
*
35935894 TATTTTTATTAAATAATTATTATT
1 TATTTTTATTAAATAATTATAATT
35935918 TATTTTT-TTAAAATAA-TAGTAATT
1 TATTTTTATT-AAATAATTA-TAATT
35935942 TATT
1 TATT
35935946 AAATATTATA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
23 4 0.16
24 21 0.84
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (24 bp):
TATTTTTATTAAATAATTATAATT
Found at i:35939768 original size:41 final size:41
Alignment explanation
Indices: 35939682--35939840 Score: 144
Period size: 41 Copynumber: 3.9 Consensus size: 41
35939672 TAACGGCGTT
* * * * * * * *
35939682 AAACGCCGCAAAAAAATGAACAATAGCGGCTTTTTTGGCCC
1 AAACGCCACCAAAAACTGATCAATAGAGGCGTTTTTAGCTC
*
35939723 AAACGCCACCAAAAACTGATCAATAGAGGCGTTTTTAGCTA
1 AAACGCCACCAAAAACTGATCAATAGAGGCGTTTTTAGCTC
* * * *
35939764 AAACGCCACTAAAAACTGAGCAGTA-ATGGCGTTTTT-GGTCC
1 AAACGCCACCAAAAACTGATCAATAGA-GGCGTTTTTAGCT-C
* *
35939805 AAACGCCACC-AAAACTTATCAATAGCGGCGTTTTTA
1 AAACGCCACCAAAAACTGATCAATAGAGGCGTTTTTA
35939841 TCAATCAGTA
Statistics
Matches: 95, Mismatches: 19, Indels: 8
0.78 0.16 0.07
Matches are distributed among these distances:
40 23 0.24
41 72 0.76
ACGTcount: A:0.36, C:0.23, G:0.18, T:0.23
Consensus pattern (41 bp):
AAACGCCACCAAAAACTGATCAATAGAGGCGTTTTTAGCTC
Found at i:35939898 original size:35 final size:32
Alignment explanation
Indices: 35939852--35939918 Score: 80
Period size: 35 Copynumber: 2.0 Consensus size: 32
35939842 CAATCAGTAA
* *
35939852 TATTCATTAACATTCAGCTAATCAGAACAATTATT
1 TATTCAATAACAGTCAG-TAA-CA-AACAATTATT
*
35939887 TATTCAATAACAGTCAGTAACAATCAATTATT
1 TATTCAATAACAGTCAGTAACAAACAATTATT
35939919 CAATAATAAT
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
32 9 0.31
33 2 0.07
34 3 0.10
35 15 0.52
ACGTcount: A:0.42, C:0.16, G:0.06, T:0.36
Consensus pattern (32 bp):
TATTCAATAACAGTCAGTAACAAACAATTATT
Found at i:35947194 original size:26 final size:26
Alignment explanation
Indices: 35947164--35947219 Score: 103
Period size: 26 Copynumber: 2.2 Consensus size: 26
35947154 TGAAATGCCC
35947164 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
*
35947190 ATCATGGAATATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
35947216 ATCA
1 ATCA
35947220 ATTTGTATCA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.36, C:0.25, G:0.07, T:0.32
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:35947322 original size:81 final size:81
Alignment explanation
Indices: 35947187--35947341 Score: 274
Period size: 81 Copynumber: 1.9 Consensus size: 81
35947177 TACCTAACCC
*
35947187 ATTATCATGGAATATTTACCTAACCCATTATCAATTTGTATCAATTTGTACCATAAATTATGGAT
1 ATTATCATGGAACATTTACCTAACCCATTATCAATTTGTATCAATTTGTACCATAAATTATGGAT
35947252 ATCAAGTGCACATTTT
66 ATCAAGTGCACATTTT
* * *
35947268 ATTATCATGGAGCATTTACCTAACCTATTGTCAATTTGTATCAATTTGTACCATAAATTATGGAT
1 ATTATCATGGAACATTTACCTAACCCATTATCAATTTGTATCAATTTGTACCATAAATTATGGAT
35947333 ATCAAGTGC
66 ATCAAGTGC
35947342 TCATATTGTC
Statistics
Matches: 70, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
81 70 1.00
ACGTcount: A:0.34, C:0.16, G:0.12, T:0.39
Consensus pattern (81 bp):
ATTATCATGGAACATTTACCTAACCCATTATCAATTTGTATCAATTTGTACCATAAATTATGGAT
ATCAAGTGCACATTTT
Found at i:35947917 original size:21 final size:21
Alignment explanation
Indices: 35947893--35947959 Score: 64
Period size: 21 Copynumber: 3.2 Consensus size: 21
35947883 TCCTAAACAT
*
35947893 TAAACATTAAACCCTAAACCC
1 TAAACATTAAACCATAAACCC
* * *
35947914 TAAA-TTCTAAAACATAAACCT
1 TAAACAT-TAAACCATAAACCC
* *
35947935 TAAACATTAATCCATAAACTC
1 TAAACATTAAACCATAAACCC
35947956 TAAA
1 TAAA
35947960 ACCCTAAACC
Statistics
Matches: 35, Mismatches: 9, Indels: 4
0.73 0.19 0.08
Matches are distributed among these distances:
20 1 0.03
21 33 0.94
22 1 0.03
ACGTcount: A:0.51, C:0.24, G:0.00, T:0.25
Consensus pattern (21 bp):
TAAACATTAAACCATAAACCC
Found at i:35948191 original size:36 final size:38
Alignment explanation
Indices: 35948113--35948192 Score: 128
Period size: 38 Copynumber: 2.2 Consensus size: 38
35948103 GCTTAAGGCC
*
35948113 TATGGTTTAGGGTTCAATGGTAGAATATATTTTAAGTT
1 TATGGTTTAGGGTTCAATGGTAGAATATATGTTAAGTT
*
35948151 TATGGTTTAGGGTTCAATGGTA-TAT-TATGTTAAGTT
1 TATGGTTTAGGGTTCAATGGTAGAATATATGTTAAGTT
35948187 TATGGT
1 TATGGT
35948193 ATGGGCCGGG
Statistics
Matches: 40, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
36 16 0.40
37 2 0.05
38 22 0.55
ACGTcount: A:0.26, C:0.03, G:0.25, T:0.46
Consensus pattern (38 bp):
TATGGTTTAGGGTTCAATGGTAGAATATATGTTAAGTT
Found at i:35952288 original size:14 final size:14
Alignment explanation
Indices: 35952271--35952315 Score: 62
Period size: 14 Copynumber: 3.5 Consensus size: 14
35952261 ATGTATATAT
35952271 ATATATCAATATGC
1 ATATATCAATATGC
35952285 ATATAT--ATA--C
1 ATATATCAATATGC
35952295 ATATATCAATATGC
1 ATATATCAATATGC
35952309 ATATATC
1 ATATATC
35952316 TTGGGTTGTT
Statistics
Matches: 27, Mismatches: 0, Indels: 8
0.77 0.00 0.23
Matches are distributed among these distances:
10 7 0.26
12 6 0.22
14 14 0.52
ACGTcount: A:0.44, C:0.13, G:0.04, T:0.38
Consensus pattern (14 bp):
ATATATCAATATGC
Found at i:35952298 original size:24 final size:24
Alignment explanation
Indices: 35952264--35952314 Score: 93
Period size: 24 Copynumber: 2.1 Consensus size: 24
35952254 GATTGTAATG
*
35952264 TATATATATATATCAATATGCATA
1 TATATACATATATCAATATGCATA
35952288 TATATACATATATCAATATGCATA
1 TATATACATATATCAATATGCATA
35952312 TAT
1 TAT
35952315 CTTGGGTTGT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.45, C:0.10, G:0.04, T:0.41
Consensus pattern (24 bp):
TATATACATATATCAATATGCATA
Found at i:35952918 original size:76 final size:76
Alignment explanation
Indices: 35952828--35953006 Score: 349
Period size: 76 Copynumber: 2.4 Consensus size: 76
35952818 ACATATAGAT
*
35952828 ATTGCTAACCCAACCAAATTATTTTTTCACTTTAAATTTATAAATTTAACAATTTATTATTCTCA
1 ATTGCTAACTCAACCAAATTATTTTTTCACTTTAAATTTATAAATTTAACAATTTATTATTCTCA
35952893 AATTTTATTGC
66 AATTTTATTGC
35952904 ATTGCTAACTCAACCAAATTATTTTTTCACTTTAAATTTATAAATTTAACAATTTATTATTCTCA
1 ATTGCTAACTCAACCAAATTATTTTTTCACTTTAAATTTATAAATTTAACAATTTATTATTCTCA
35952969 AATTTTATTGC
66 AATTTTATTGC
35952980 ATTGCTAACTCAACCAAATTATTTTTT
1 ATTGCTAACTCAACCAAATTATTTTTT
35953007 GTCTAAATTT
Statistics
Matches: 102, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
76 102 1.00
ACGTcount: A:0.35, C:0.16, G:0.03, T:0.46
Consensus pattern (76 bp):
ATTGCTAACTCAACCAAATTATTTTTTCACTTTAAATTTATAAATTTAACAATTTATTATTCTCA
AATTTTATTGC
Found at i:35953253 original size:23 final size:23
Alignment explanation
Indices: 35953223--35953268 Score: 83
Period size: 23 Copynumber: 2.0 Consensus size: 23
35953213 AAAGTATTTG
*
35953223 GTTAAGAAAATTTATTTGATAAT
1 GTTAAGAAAATTCATTTGATAAT
35953246 GTTAAGAAAATTCATTTGATAAT
1 GTTAAGAAAATTCATTTGATAAT
35953269 AATAAAAAAG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.43, C:0.02, G:0.13, T:0.41
Consensus pattern (23 bp):
GTTAAGAAAATTCATTTGATAAT
Found at i:35953284 original size:22 final size:22
Alignment explanation
Indices: 35953225--35953284 Score: 68
Period size: 23 Copynumber: 2.6 Consensus size: 22
35953215 AGTATTTGGT
**
35953225 TAAGAAAATTTATTTGATAATGT
1 TAAGAAAA-TTATTTGATAATAA
35953248 TAAGAAAATTCATTTGATAATAA
1 TAAGAAAATT-ATTTGATAATAA
35953271 TAA-AAAAGTTATTT
1 TAAGAAAA-TTATTT
35953285 TTATTTCAAT
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
22 10 0.30
23 23 0.70
ACGTcount: A:0.48, C:0.02, G:0.10, T:0.40
Consensus pattern (22 bp):
TAAGAAAATTATTTGATAATAA
Found at i:35953788 original size:17 final size:17
Alignment explanation
Indices: 35953768--35953809 Score: 52
Period size: 16 Copynumber: 2.6 Consensus size: 17
35953758 GTAATACATC
* *
35953768 ATATTTATTAATTTTTG
1 ATATTTAATAATGTTTG
35953785 ATA-TTAATAATGTTTG
1 ATATTTAATAATGTTTG
35953801 AT-TTTAATA
1 ATATTTAATA
35953810 TTTGATATTT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
16 19 0.86
17 3 0.14
ACGTcount: A:0.36, C:0.00, G:0.07, T:0.57
Consensus pattern (17 bp):
ATATTTAATAATGTTTG
Found at i:35953984 original size:9 final size:9
Alignment explanation
Indices: 35953972--35954254 Score: 187
Period size: 9 Copynumber: 32.6 Consensus size: 9
35953962 TATATCATAT
35953972 CATAACTTA
1 CATAACTTA
*
35953981 CATAATTTA
1 CATAACTTA
35953990 CATAACTTA
1 CATAACTTA
*
35953999 TATAACTTA
1 CATAACTTA
* *
35954008 GATAA-ATA
1 CATAACTTA
*
35954016 TATAACTTA
1 CATAACTTA
35954025 CATAACTTA
1 CATAACTTA
* *
35954034 CACAA-ATA
1 CATAACTTA
* * *
35954042 TATATCATA
1 CATAACTTA
35954051 TCATAACTTA
1 -CATAACTTA
35954061 CATAA--TA
1 CATAACTTA
*
35954068 CATAA-ATA
1 CATAACTTA
* * *
35954076 TATATCATA
1 CATAACTTA
35954085 TCATAACTTA
1 -CATAACTTA
35954095 CATAACTTA
1 CATAACTTA
35954104 CATAACTTA
1 CATAACTTA
*
35954113 TATAACTTA
1 CATAACTTA
* *
35954122 GATAA-ATA
1 CATAACTTA
*
35954130 TATAACTTA
1 CATAACTTA
35954139 CATAACTTA
1 CATAACTTA
*
35954148 CATAA-ATA
1 CATAACTTA
* * *
35954156 TATATCATA
1 CATAACTTA
*
35954165 TCATATCTTA
1 -CATAACTTA
35954175 CATAACTTA
1 CATAACTTA
*
35954184 CAAAACTTA
1 CATAACTTA
*
35954193 CTTAACTTA
1 CATAACTTA
35954202 CATAA--TA
1 CATAACTTA
*
35954209 CATAA-ATA
1 CATAACTTA
*
35954217 TAT-A--TA
1 CATAACTTA
35954223 CATAACTTA
1 CATAACTTA
*
35954232 CAAAACTTA
1 CATAACTTA
*
35954241 CTTAACTTA
1 CATAACTTA
35954250 CATAA
1 CATAA
35954255 TACATAAATA
Statistics
Matches: 218, Mismatches: 43, Indels: 26
0.76 0.15 0.09
Matches are distributed among these distances:
6 4 0.02
7 16 0.07
8 30 0.14
9 149 0.68
10 19 0.09
ACGTcount: A:0.48, C:0.16, G:0.01, T:0.35
Consensus pattern (9 bp):
CATAACTTA
Found at i:35954067 original size:26 final size:26
Alignment explanation
Indices: 35953958--35954143 Score: 116
Period size: 26 Copynumber: 7.1 Consensus size: 26
35953948 CTTAATGTTA
*
35953958 AATATATATCATATCATAACTTACAT
1 AATATATAACATATCATAACTTACAT
* * *
35953984 AATTTACATAACTTAT-ATAACTTAGAT
1 AA--TATATAACATATCATAACTTACAT
* *
35954011 AAATATATAACTTA-CATAACTTACACA
1 -AATATATAACATATCATAACTTACA-T
*
35954038 AATATATATCATATCATAACTTACAT
1 AATATATAACATATCATAACTTACAT
* * *
35954064 AATACATAA-ATAT-ATATCATATCAT
1 AATATATAACATATCATAACTTA-CAT
* * *
35954089 AACTTACATAACTTA-CATAACTTATAT
1 AA--TATATAACATATCATAACTTACAT
*
35954116 AACTTAGATAA-ATAT-ATAACTTACAT
1 AA--TATATAACATATCATAACTTACAT
35954142 AA
1 AA
35954144 CTTACATAAA
Statistics
Matches: 127, Mismatches: 21, Indels: 24
0.74 0.12 0.14
Matches are distributed among these distances:
24 6 0.05
25 9 0.07
26 53 0.42
27 40 0.31
28 19 0.15
ACGTcount: A:0.48, C:0.15, G:0.01, T:0.36
Consensus pattern (26 bp):
AATATATAACATATCATAACTTACAT
Found at i:35954084 original size:114 final size:114
Alignment explanation
Indices: 35953956--35954179 Score: 421
Period size: 114 Copynumber: 2.0 Consensus size: 114
35953946 ATCTTAATGT
*
35953956 TAAATATATATCATATCATAACTTACATAATTTACATAACTTATATAACTTAGATAAATATATAA
1 TAAATATATATCATATCATAACTTACATAACTTACATAACTTATATAACTTAGATAAATATATAA
35954021 CTTACATAACTTACACAAATATATATCATATCATAACTTACATAATACA
66 CTTACATAACTTACACAAATATATATCATATCATAACTTACATAATACA
35954070 TAAATATATATCATATCATAACTTACATAACTTACATAACTTATATAACTTAGATAAATATATAA
1 TAAATATATATCATATCATAACTTACATAACTTACATAACTTATATAACTTAGATAAATATATAA
* *
35954135 CTTACATAACTTACATAAATATATATCATATCATATCTTACATAA
66 CTTACATAACTTACACAAATATATATCATATCATAACTTACATAA
35954180 CTTACAAAAC
Statistics
Matches: 107, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
114 107 1.00
ACGTcount: A:0.48, C:0.15, G:0.01, T:0.37
Consensus pattern (114 bp):
TAAATATATATCATATCATAACTTACATAACTTACATAACTTATATAACTTAGATAAATATATAA
CTTACATAACTTACACAAATATATATCATATCATAACTTACATAATACA
Found at i:35954144 original size:26 final size:25
Alignment explanation
Indices: 35954105--35954268 Score: 75
Period size: 26 Copynumber: 6.1 Consensus size: 25
35954095 CATAACTTAC
* *
35954105 ATAACTTATATAACTTAGATAAATAT
1 ATAACTTACATAA-TTACATAAATAT
35954131 ATAACTTACATAACTTACATAAATAT
1 ATAACTTACATAA-TTACATAAATAT
* * * * *
35954157 ATATCATATCATATCTTACATAACTTAC
1 ATAACTTA-CATA-ATTACATAA-ATAT
* * *
35954185 AAAACTTACTTAACTTACATAATACATAA
1 ATAACTTACATAA-TTACAT-A-A-ATAT
35954214 ATATA-TATACATAACTTACA-AAACT-T
1 ATA-ACT-TACATAA-TTACATAAA-TAT
35954240 ACTTAACTTACATAA-TACATAAATAT
1 A--TAACTTACATAATTACATAAATAT
35954266 ATA
1 ATA
35954269 CTTGAAAATC
Statistics
Matches: 107, Mismatches: 17, Indels: 30
0.69 0.11 0.19
Matches are distributed among these distances:
24 2 0.02
25 5 0.05
26 37 0.35
27 31 0.29
28 12 0.11
29 7 0.07
30 13 0.12
ACGTcount: A:0.49, C:0.15, G:0.01, T:0.35
Consensus pattern (25 bp):
ATAACTTACATAATTACATAAATAT
Found at i:35954164 original size:80 final size:79
Alignment explanation
Indices: 35954048--35954213 Score: 250
Period size: 80 Copynumber: 2.1 Consensus size: 79
35954038 AATATATATC
*
35954048 ATATCATAACTTACATAATACATAAATATATATCATATCATAACTTACATAACTTACATAACTTA
1 ATATCATAACTTACATAATACATAAATATATATCATATCATAACTTACATAACTTACAAAACTTA
*
35954113 -TATAACTTAGATAA
66 CT-TAACTTACATAA
*
35954127 ATAT-ATAACTTACATAACTTACATAAATATATATCATATCATATCTTACATAACTTACAAAACT
1 ATATCATAACTTACATAA--TACATAAATATATATCATATCATAACTTACATAACTTACAAAACT
35954191 TACTTAACTTACAT-A
64 TACTTAACTTACATAA
35954206 ATA-CATAA
1 ATATCATAA
35954214 ATATATATAC
Statistics
Matches: 80, Mismatches: 3, Indels: 8
0.88 0.03 0.09
Matches are distributed among these distances:
78 13 0.16
79 12 0.15
80 54 0.68
81 1 0.01
ACGTcount: A:0.48, C:0.16, G:0.01, T:0.36
Consensus pattern (79 bp):
ATATCATAACTTACATAATACATAAATATATATCATATCATAACTTACATAACTTACAAAACTTA
CTTAACTTACATAA
Found at i:35954250 original size:57 final size:54
Alignment explanation
Indices: 35954134--35954264 Score: 151
Period size: 57 Copynumber: 2.4 Consensus size: 54
35954124 TAAATATATA
* * * *
35954134 ACTTACATAACTTACATAAATATATATCATATCATATCTTACATAACTTACAAA
1 ACTTACATAACTTACATAAATAAATATCATATCATAACTTACAAAACTTACATA
* *
35954188 ACTTACTTAACTTACATAATACATAAATAT-ATATACATAACTTACAAAACTTACTTA
1 ACTTACATAACTTACAT-A-A-ATAAATATCATAT-CATAACTTACAAAACTTACATA
35954245 ACTTACATAA--TACATAAATA
1 ACTTACATAACTTACATAAATA
35954265 TATACTTGAA
Statistics
Matches: 66, Mismatches: 7, Indels: 10
0.80 0.08 0.12
Matches are distributed among these distances:
52 3 0.05
53 1 0.02
54 17 0.26
55 6 0.09
56 5 0.08
57 34 0.52
ACGTcount: A:0.48, C:0.18, G:0.00, T:0.34
Consensus pattern (54 bp):
ACTTACATAACTTACATAAATAAATATCATATCATAACTTACAAAACTTACATA
Found at i:35954289 original size:48 final size:48
Alignment explanation
Indices: 35954173--35954268 Score: 156
Period size: 48 Copynumber: 2.0 Consensus size: 48
35954163 TATCATATCT
* *
35954173 TACATAACTTACAAAACTTACTTAACTTACATAATACATAAATATATA
1 TACATAAATCACAAAACTTACTTAACTTACATAATACATAAATATATA
* *
35954221 TACATAACTTACAAAACTTACTTAACTTACATAATACATAAATATATA
1 TACATAAATCACAAAACTTACTTAACTTACATAATACATAAATATATA
35954269 CTTGAAAATC
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
48 48 1.00
ACGTcount: A:0.50, C:0.17, G:0.00, T:0.33
Consensus pattern (48 bp):
TACATAAATCACAAAACTTACTTAACTTACATAATACATAAATATATA
Found at i:35954324 original size:7 final size:7
Alignment explanation
Indices: 35954312--35954343 Score: 55
Period size: 7 Copynumber: 4.6 Consensus size: 7
35954302 ACACCCATTA
35954312 GATACTT
1 GATACTT
35954319 GATACTT
1 GATACTT
*
35954326 GATATTT
1 GATACTT
35954333 GATACTT
1 GATACTT
35954340 GATA
1 GATA
35954344 TGTATTATCT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
7 23 1.00
ACGTcount: A:0.31, C:0.09, G:0.16, T:0.44
Consensus pattern (7 bp):
GATACTT
Found at i:35956802 original size:52 final size:52
Alignment explanation
Indices: 35956740--35957574 Score: 1643
Period size: 52 Copynumber: 16.1 Consensus size: 52
35956730 GATACAAATG
35956740 GATAATGGGTTAGGTAAATGTTCCATGACAATGGATTAGGTAAATATTCCAT
1 GATAATGGGTTAGGTAAATGTTCCATGACAATGGATTAGGTAAATATTCCAT
35956792 GATAATGGGTTAGGTAAATGTTCCATGACAATGGATTAGGTAAATATTCCAT
1 GATAATGGGTTAGGTAAATGTTCCATGACAATGGATTAGGTAAATATTCCAT
35956844 GATAATGGGTTAGGTAAATGTTCCATGACAATGGATTAGGTAAATATTCCAT
1 GATAATGGGTTAGGTAAATGTTCCATGACAATGGATTAGGTAAATATTCCAT
35956896 GATAATGGGTTAGGTAAATGTTCCATGACAATGGATTAGGTAAATATTCCAT
1 GATAATGGGTTAGGTAAATGTTCCATGACAATGGATTAGGTAAATATTCCAT
35956948 GATAATGGGTTAGGTAAATGTTCCATGACAATGGATTAGGTAAATATTCCAT
1 GATAATGGGTTAGGTAAATGTTCCATGACAATGGATTAGGTAAATATTCCAT
35957000 GATAATGGGTTAGGTAAATGTTCCATGACAATGGATTAGGTAAATATTCCAT
1 GATAATGGGTTAGGTAAATGTTCCATGACAATGGATTAGGTAAATATTCCAT
35957052 GATAATGGGTTAGGTAAATGTTCCATGACAATGGATTAGGTAAATATTCCAT
1 GATAATGGGTTAGGTAAATGTTCCATGACAATGGATTAGGTAAATATTCCAT
35957104 GATAATGGGTTAGGTAAATGTTCCATGACAATGGATTAGGTAAATATTCCAT
1 GATAATGGGTTAGGTAAATGTTCCATGACAATGGATTAGGTAAATATTCCAT
35957156 GATAATGGGTTAGGTAAATGTTCCATGACAATGGATTAGGTAAATATTCCAT
1 GATAATGGGTTAGGTAAATGTTCCATGACAATGGATTAGGTAAATATTCCAT
35957208 GATAATGGGTTAGGTAAATGTTCCATGACAATGGATTAGGTAAATATTCCAT
1 GATAATGGGTTAGGTAAATGTTCCATGACAATGGATTAGGTAAATATTCCAT
35957260 GATAATGGGTTAGGTAAATGTTCCATGACAATGGATTAGGTAAATATTCCAT
1 GATAATGGGTTAGGTAAATGTTCCATGACAATGGATTAGGTAAATATTCCAT
35957312 GATAATGGGTTAGGTAAATGTTCCATGACAATGGATTAGGTAAATATTCCAT
1 GATAATGGGTTAGGTAAATGTTCCATGACAATGGATTAGGTAAATATTCCAT
35957364 GATAATGGGTTAGGTAAATGTTCCATGACAATGGATTAGGTAAATATTCCAT
1 GATAATGGGTTAGGTAAATGTTCCATGACAATGGATTAGGTAAATATTCCAT
35957416 GATAATGGGTTAGGTAAATGTTCCATGACAATGGATTAGGTAAATATTCCAT
1 GATAATGGGTTAGGTAAATGTTCCATGACAATGGATTAGGTAAATATTCCAT
35957468 GATAATGGGTTAGGTAAATGTTCCATGACAATGGATTAGGTAAATATTCCAT
1 GATAATGGGTTAGGTAAATGTTCCATGACAATGGATTAGGTAAATATTCCAT
* * *
35957520 GATAATGGGTTAGGTAAATGTTCCATGATAATGGTTTAGGTAAATGTTCCAT
1 GATAATGGGTTAGGTAAATGTTCCATGACAATGGATTAGGTAAATATTCCAT
35957572 GAT
1 GAT
35957575 GGGAATTTCA
Statistics
Matches: 780, Mismatches: 3, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
52 780 1.00
ACGTcount: A:0.34, C:0.09, G:0.23, T:0.33
Consensus pattern (52 bp):
GATAATGGGTTAGGTAAATGTTCCATGACAATGGATTAGGTAAATATTCCAT
Found at i:35963315 original size:26 final size:26
Alignment explanation
Indices: 35963286--35964120 Score: 1301
Period size: 26 Copynumber: 32.1 Consensus size: 26
35963276 GATACAAATG
35963286 GATAATGGGTTAGGTAAATGTTCCAT
1 GATAATGGGTTAGGTAAATGTTCCAT
* * *
35963312 GATAATGGATTAGGTAAATATTCTAT
1 GATAATGGGTTAGGTAAATGTTCCAT
*
35963338 GATAATGGGTTAGGTAAATGCTCCAT
1 GATAATGGGTTAGGTAAATGTTCCAT
35963364 GATAATGGGTTAGGTAAATGTTCCAT
1 GATAATGGGTTAGGTAAATGTTCCAT
* * *
35963390 GATAATGGATTAGGTAAATATTCTAT
1 GATAATGGGTTAGGTAAATGTTCCAT
*
35963416 GATAATGGGTTAGGTAAATGCTCCAT
1 GATAATGGGTTAGGTAAATGTTCCAT
35963442 GATAATGGGTTAGGTAAATGTTCCAT
1 GATAATGGGTTAGGTAAATGTTCCAT
* * *
35963468 GATAATGGATTAGGTAAATATTCTAT
1 GATAATGGGTTAGGTAAATGTTCCAT
*
35963494 GATAATGGGTTAGGTAAATGCTCCAT
1 GATAATGGGTTAGGTAAATGTTCCAT
35963520 GATAATGGGTTAGGTAAATGTTCCAT
1 GATAATGGGTTAGGTAAATGTTCCAT
* * *
35963546 GATAATGGATTAGGTAAATATTCTAT
1 GATAATGGGTTAGGTAAATGTTCCAT
*
35963572 GATAATGGGTTAGGTAAATGCTCCAT
1 GATAATGGGTTAGGTAAATGTTCCAT
35963598 GATAATGGGTTAGGTAAATGTTCCAT
1 GATAATGGGTTAGGTAAATGTTCCAT
* * *
35963624 GATAATGGATTAGGTAAATATTCTAT
1 GATAATGGGTTAGGTAAATGTTCCAT
*
35963650 GATAATGGGTTAGGTAAATGCTCCAT
1 GATAATGGGTTAGGTAAATGTTCCAT
35963676 GATAATGGGTTAGGTAAATGTTCCAT
1 GATAATGGGTTAGGTAAATGTTCCAT
* * *
35963702 GATAATGGATTAGGTAAATATTCTAT
1 GATAATGGGTTAGGTAAATGTTCCAT
*
35963728 GATAATGGGTTAGGTAAATGCTCCAT
1 GATAATGGGTTAGGTAAATGTTCCAT
35963754 GATAATGGGTTAGGTAAATGTTCCAT
1 GATAATGGGTTAGGTAAATGTTCCAT
* * *
35963780 GATAATGGATTAGGTAAATATTCTAT
1 GATAATGGGTTAGGTAAATGTTCCAT
*
35963806 GATAATGGGTTAGGTAAATGCTCCAT
1 GATAATGGGTTAGGTAAATGTTCCAT
35963832 GATAATGGGTTAGGTAAATGTTCCAT
1 GATAATGGGTTAGGTAAATGTTCCAT
* * *
35963858 GATAATGGATTAGGTAAATATTCTAT
1 GATAATGGGTTAGGTAAATGTTCCAT
*
35963884 GATAATGGGTTAGGTAAATGCTCCAT
1 GATAATGGGTTAGGTAAATGTTCCAT
35963910 GATAATGGGTTAGGTAAATGTTCCAT
1 GATAATGGGTTAGGTAAATGTTCCAT
* * *
35963936 GATAATGGATTAGGTAAATATTCTAT
1 GATAATGGGTTAGGTAAATGTTCCAT
*
35963962 GATAATGGGTTAGGTAAATGCTCCAT
1 GATAATGGGTTAGGTAAATGTTCCAT
35963988 GATAATGGGTTAGGTAAATGTTCCAT
1 GATAATGGGTTAGGTAAATGTTCCAT
* * *
35964014 GATAATGGATTAGGTAAATATTCTAT
1 GATAATGGGTTAGGTAAATGTTCCAT
*
35964040 GATAATGGGTTAGGTAAATGCTCCAT
1 GATAATGGGTTAGGTAAATGTTCCAT
35964066 GATAATGGGTTAGGTAAATGTTCCAT
1 GATAATGGGTTAGGTAAATGTTCCAT
*
35964092 GATAATGGTTTAGGTAAATGTTCCAT
1 GATAATGGGTTAGGTAAATGTTCCAT
35964118 GAT
1 GAT
35964121 GGGAATTTCA
Statistics
Matches: 728, Mismatches: 81, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
26 728 1.00
ACGTcount: A:0.33, C:0.08, G:0.24, T:0.35
Consensus pattern (26 bp):
GATAATGGGTTAGGTAAATGTTCCAT
Found at i:35963415 original size:78 final size:78
Alignment explanation
Indices: 35963286--35964120 Score: 1643
Period size: 78 Copynumber: 10.7 Consensus size: 78
35963276 GATACAAATG
35963286 GATAATGGGTTAGGTAAATGTTCCATGATAATGGATTAGGTAAATATTCTATGATAATGGGTTAG
1 GATAATGGGTTAGGTAAATGTTCCATGATAATGGATTAGGTAAATATTCTATGATAATGGGTTAG
35963351 GTAAATGCTCCAT
66 GTAAATGCTCCAT
35963364 GATAATGGGTTAGGTAAATGTTCCATGATAATGGATTAGGTAAATATTCTATGATAATGGGTTAG
1 GATAATGGGTTAGGTAAATGTTCCATGATAATGGATTAGGTAAATATTCTATGATAATGGGTTAG
35963429 GTAAATGCTCCAT
66 GTAAATGCTCCAT
35963442 GATAATGGGTTAGGTAAATGTTCCATGATAATGGATTAGGTAAATATTCTATGATAATGGGTTAG
1 GATAATGGGTTAGGTAAATGTTCCATGATAATGGATTAGGTAAATATTCTATGATAATGGGTTAG
35963507 GTAAATGCTCCAT
66 GTAAATGCTCCAT
35963520 GATAATGGGTTAGGTAAATGTTCCATGATAATGGATTAGGTAAATATTCTATGATAATGGGTTAG
1 GATAATGGGTTAGGTAAATGTTCCATGATAATGGATTAGGTAAATATTCTATGATAATGGGTTAG
35963585 GTAAATGCTCCAT
66 GTAAATGCTCCAT
35963598 GATAATGGGTTAGGTAAATGTTCCATGATAATGGATTAGGTAAATATTCTATGATAATGGGTTAG
1 GATAATGGGTTAGGTAAATGTTCCATGATAATGGATTAGGTAAATATTCTATGATAATGGGTTAG
35963663 GTAAATGCTCCAT
66 GTAAATGCTCCAT
35963676 GATAATGGGTTAGGTAAATGTTCCATGATAATGGATTAGGTAAATATTCTATGATAATGGGTTAG
1 GATAATGGGTTAGGTAAATGTTCCATGATAATGGATTAGGTAAATATTCTATGATAATGGGTTAG
35963741 GTAAATGCTCCAT
66 GTAAATGCTCCAT
35963754 GATAATGGGTTAGGTAAATGTTCCATGATAATGGATTAGGTAAATATTCTATGATAATGGGTTAG
1 GATAATGGGTTAGGTAAATGTTCCATGATAATGGATTAGGTAAATATTCTATGATAATGGGTTAG
35963819 GTAAATGCTCCAT
66 GTAAATGCTCCAT
35963832 GATAATGGGTTAGGTAAATGTTCCATGATAATGGATTAGGTAAATATTCTATGATAATGGGTTAG
1 GATAATGGGTTAGGTAAATGTTCCATGATAATGGATTAGGTAAATATTCTATGATAATGGGTTAG
35963897 GTAAATGCTCCAT
66 GTAAATGCTCCAT
35963910 GATAATGGGTTAGGTAAATGTTCCATGATAATGGATTAGGTAAATATTCTATGATAATGGGTTAG
1 GATAATGGGTTAGGTAAATGTTCCATGATAATGGATTAGGTAAATATTCTATGATAATGGGTTAG
35963975 GTAAATGCTCCAT
66 GTAAATGCTCCAT
35963988 GATAATGGGTTAGGTAAATGTTCCATGATAATGGATTAGGTAAATATTCTATGATAATGGGTTAG
1 GATAATGGGTTAGGTAAATGTTCCATGATAATGGATTAGGTAAATATTCTATGATAATGGGTTAG
35964053 GTAAATGCTCCAT
66 GTAAATGCTCCAT
* * *
35964066 GATAATGGGTTAGGTAAATGTTCCATGATAATGGTTTAGGTAAATGTTCCATGAT
1 GATAATGGGTTAGGTAAATGTTCCATGATAATGGATTAGGTAAATATTCTATGAT
35964121 GGGAATTTCA
Statistics
Matches: 754, Mismatches: 3, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
78 754 1.00
ACGTcount: A:0.33, C:0.08, G:0.24, T:0.35
Consensus pattern (78 bp):
GATAATGGGTTAGGTAAATGTTCCATGATAATGGATTAGGTAAATATTCTATGATAATGGGTTAG
GTAAATGCTCCAT
Found at i:35967662 original size:19 final size:20
Alignment explanation
Indices: 35967640--35967687 Score: 89
Period size: 20 Copynumber: 2.5 Consensus size: 20
35967630 GTCCCCCCCC
35967640 AAAAAAACCTAA-CCCCAAA
1 AAAAAAACCTAACCCCCAAA
35967659 AAAAAAACCTAACCCCCAAA
1 AAAAAAACCTAACCCCCAAA
35967679 AAAAAAACC
1 AAAAAAACC
35967688 AAGAAACCCA
Statistics
Matches: 28, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
19 12 0.43
20 16 0.57
ACGTcount: A:0.65, C:0.31, G:0.00, T:0.04
Consensus pattern (20 bp):
AAAAAAACCTAACCCCCAAA
Found at i:35967697 original size:21 final size:20
Alignment explanation
Indices: 35967640--35967698 Score: 57
Period size: 20 Copynumber: 3.0 Consensus size: 20
35967630 GTCCCCCCCC
* *
35967640 AAAAAAACC-TAACCCCAAA
1 AAAAAAACCAAAAACCCAAA
* **
35967659 AAAAAAACCTAACCCCCAAA
1 AAAAAAACCAAAAACCCAAA
35967679 AAAAAAACCAAGAAACCCAA
1 AAAAAAACCAA-AAACCCAA
35967699 NNNNNNNNNN
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
19 9 0.27
20 18 0.55
21 6 0.18
ACGTcount: A:0.64, C:0.31, G:0.02, T:0.03
Consensus pattern (20 bp):
AAAAAAACCAAAAACCCAAA
Found at i:35980538 original size:62 final size:62
Alignment explanation
Indices: 35980472--35980649 Score: 347
Period size: 62 Copynumber: 2.9 Consensus size: 62
35980462 CGTATGTTTC
35980472 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACGCGCTGAGGTATTTTTAAA
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACGCGCTGAGGTATTTTTAAA
35980534 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACGCGCTGAGGTATTTTTAAA
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACGCGCTGAGGTATTTTTAAA
*
35980596 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTA
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACGCGCTGAGGTA
35980650 ATTTCAATTT
Statistics
Matches: 115, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
62 115 1.00
ACGTcount: A:0.33, C:0.17, G:0.26, T:0.24
Consensus pattern (62 bp):
AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACGCGCTGAGGTATTTTTAAA
Found at i:35980763 original size:76 final size:76
Alignment explanation
Indices: 35980596--35981204 Score: 827
Period size: 76 Copynumber: 8.0 Consensus size: 76
35980586 TATTTTTAAA
35980596 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-AGGACACGCTGAGGTAATT-TCAATT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGA-GACACGCTGAGGT-ATTGTCAATT
* ***
35980659 TCT-GT-TGTCAA
64 TTTCGTATGTTTC
* *
35980670 AAAAATCAACTCATATTGCGAGAGGCGAGTTGAGCCTC-AGGTCACACG-TCGAGGTATTTTCAA
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGA-G--ACACGCT-GAGGTATTGTCAA
*
35980733 -TTTTC-AATGTTTC
62 TTTTTCGTATGTTTC
35980746 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGAGACACGCTGAGGTATTGTCAATTTT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGAGACACGCTGAGGTATTGTCAATTTT
35980811 TCGTATGTTTC
66 TCGTATGTTTC
35980822 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGAGACACGCTGAGGTATTGTCAATTTT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGAGACACGCTGAGGTATTGTCAATTTT
35980887 TCGTATGTTTC
66 TCGTATGTTTC
35980898 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGAGACACGCTGAGGTATTGTCAATTTT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGAGACACGCTGAGGTATTGTCAATTTT
35980963 TCGTATGTTTC
66 TCGTATGTTTC
35980974 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGAGACACGCTGAGGTATTGTCAATTTT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGAGACACGCTGAGGTATTGTCAATTTT
**
35981039 TCGTATGTTAA
66 TCGTATGTTTC
*
35981050 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTGAGGTAATT-TCAATTT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGAGACACGCTGAGGT-ATTGTCAATTT
* ***
35981114 CT-GT-TGTCGAAAA
65 TTCGTATGT---TTC
* * *
35981127 AAAAATCAACTCGTATTGCGAGAGGCGAGTTGAGCCTC-AGGTCACACG-TCGAGGTATTTTCAA
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGA-G--ACACGCT-GAGGTATTGTCAA
35981190 -TTTTCGT-T-TTTC
62 TTTTTCGTATGTTTC
35981202 AAA
1 AAA
35981205 TTTCTGCCTT
Statistics
Matches: 495, Mismatches: 20, Indels: 39
0.89 0.04 0.07
Matches are distributed among these distances:
74 60 0.12
75 18 0.04
76 349 0.71
77 43 0.09
78 8 0.02
79 17 0.03
ACGTcount: A:0.29, C:0.18, G:0.23, T:0.30
Consensus pattern (76 bp):
AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGAGACACGCTGAGGTATTGTCAATTTT
TCGTATGTTTC
Found at i:35981004 original size:228 final size:225
Alignment explanation
Indices: 35980594--35981361 Score: 962
Period size: 228 Copynumber: 3.3 Consensus size: 225
35980584 GGTATTTTTA
35980594 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATT
1 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCA-GACACGCTGAGGTAATTTCAATT
*
35980659 TCTGTTGTCAAAAAAATCAACTCATATTGCGAGAGGCGAGTTGAGCCTCAGGTCACACGTCGAGG
65 TCTGTTGTAAAAAAAATCAACTCATATTGCGAGAGGCGAGTTGAGCCTCAGG-CACACGTCGAGG
*
35980724 TATTTTCAATTTTC-AATGTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGAGA
129 TATTTTCAATTTTCGTATGTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGAGA
35980788 CACGCTGAGGTATTGTCAATTTTTCGTATGTT
194 CACGCTGAGGTATTGTCAATTTTTCGTATGTT
**
35980820 TCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGAGACACGCTGAGGT-ATTGTCAAT
1 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-AGACACGCTGAGGTAATT-TCAAT
* *** *
35980884 TTTTCGTATGTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-GAG-ACACG-CT
64 TTCT-GT-TGTAAAAAAAATCAACTCATATTGCGAGAGGCGAGTTGAGCCTCAG-GCACACGTC-
*
35980946 GAGGTATTGTCAATTTTTCGTATGTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT
125 GAGGTATTTTCAA-TTTTCGTATGTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT
35981011 CGAGACACGCTGAGGTATTGTCAATTTTTCGTATGTT
189 CGAGACACGCTGAGGTATTGTCAATTTTTCGTATGTT
35981048 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATT
1 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-AGACACGCTGAGGTAATTTCAATT
*
35981113 TCTGTTGTCGAAAAAAAAATCAACTCGTATTGCGAGAGGCGAGTTGAGCCTCAGGTCACACGTCG
65 TCTGTTGT---AAAAAAAATCAACTCATATTGCGAGAGGCGAGTTGAGCCTCAGG-CACACGTCG
35981178 AGGTATTTTCAATTTTCGTTTTTCAAATTTCTGCCTTTCAAAAAAAAATCAACTCATATTGCGAG
126 AGGTATTTTCAATTTTCG----T---A----TG--TTTC----AAAAATCAACTCATATTGCGAG
* *
35981243 AGGTGAGTTGAGCCTC-AGGACACGCTGAGGTAATT-TCAATTTCT-GT-TGTAA
174 AGGTGAGTTGAGCCTCGA-GACACGCTGAGGT-ATTGTCAATTTTTCGTATGT-T
* * ** *
35981294 AAAAAAATCAACTCGTATTGCGAGCGACGAGTTGAGCCTCAGGTCACACGCCGAGG-AATTTTCA
1 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCA-G--ACACGCTGAGGTAA-TTTCA
35981358 ATTT
62 ATTT
35981362 TCGTTTTTCA
Statistics
Matches: 476, Mismatches: 26, Indels: 58
0.85 0.05 0.10
Matches are distributed among these distances:
225 4 0.01
226 79 0.17
227 11 0.02
228 182 0.38
229 40 0.08
230 7 0.01
231 17 0.04
232 1 0.00
234 1 0.00
237 1 0.00
241 2 0.00
243 4 0.01
245 4 0.01
246 40 0.08
247 61 0.13
248 22 0.05
ACGTcount: A:0.30, C:0.18, G:0.22, T:0.30
Consensus pattern (225 bp):
AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGACACGCTGAGGTAATTTCAATTT
CTGTTGTAAAAAAAATCAACTCATATTGCGAGAGGCGAGTTGAGCCTCAGGCACACGTCGAGGTA
TTTTCAATTTTCGTATGTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGAGACA
CGCTGAGGTATTGTCAATTTTTCGTATGTT
Found at i:35981326 original size:75 final size:76
Alignment explanation
Indices: 35981217--35981361 Score: 213
Period size: 75 Copynumber: 1.9 Consensus size: 76
35981207 TCTGCCTTTC
** *
35981217 AAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG-ACACGCTGAGGTAA-TTTC
1 AAAAAAAAATCAACTCATATTGCGAGAGACGAGTTGAGCCTCAGGCACACGCCGAGG-AATTTTC
35981280 AATTTCTGTTGT
65 AATTTCTGTTGT
* *
35981292 AAAAAAAAATCAACTCGTATTGCGAGCGACGAGTTGAGCCTCAGGTCACACGCCGAGGAATTTTC
1 AAAAAAAAATCAACTCATATTGCGAGAGACGAGTTGAGCCTCAGG-CACACGCCGAGGAATTTTC
35981357 AATTT
65 AATTT
35981362 TCGTTTTTCA
Statistics
Matches: 62, Mismatches: 5, Indels: 4
0.87 0.07 0.06
Matches are distributed among these distances:
75 41 0.66
76 2 0.03
77 19 0.31
ACGTcount: A:0.34, C:0.19, G:0.22, T:0.26
Consensus pattern (76 bp):
AAAAAAAAATCAACTCATATTGCGAGAGACGAGTTGAGCCTCAGGCACACGCCGAGGAATTTTCA
ATTTCTGTTGT
Found at i:35981394 original size:171 final size:170
Alignment explanation
Indices: 35981048--35981603 Score: 734
Period size: 169 Copynumber: 3.2 Consensus size: 170
35981038 TTCGTATGTT
*
35981048 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATT
1 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATT
* *
35981113 TCTGTTGTCGAAAAAAAAATCAACTCGTATTGCGAGAGGCGAGTTGAGCCTCAGGTCACACGTCG
66 TCTGTTGTC-AAAAAAAAATCAACTCGTATTGCGAGAGACGAGTTGAGCCTCAGGTCACACGCCG
*
35981178 AGGTATTTTCAATTTTCGTTTTTCAAATTTCTGCCTTTCAA
130 AGGAATTTTCAATTTTCGTTTTTCAAATTTCTGCCTTTCAA
35981219 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATT
1 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATT
*
35981284 TCTGTTGT-AAAAAAAAATCAACTCGTATTGCGAGCGACGAGTTGAGCCTCAGGTCACACGCCGA
66 TCTGTTGTCAAAAAAAAATCAACTCGTATTGCGAGAGACGAGTTGAGCCTCAGGTCACACGCCGA
35981348 GGAATTTTCAATTTTCGTTTTTCAAATTTCTGCCTTTCAA
131 GGAATTTTCAATTTTCGTTTTTCAAATTTCTGCCTTTCAA
*
35981388 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTCAGCCTCAGGACACGCTGAGGTATTTTCAATT
1 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGG-----T-AA--
* * **
35981453 TTTTTTTCAATTTATGTTTGTC--AAAAAAATCAACTCCTATTGCGAGAGGTGAGTTGAGCCTCA
58 ----TTTCAATTTCTG-TTGTCAAAAAAAAATCAACTCGTATTGCGAGAGACGAGTTGAGCCTCA
* * * ** *
35981516 GGCCACACGCCGAGGTATTTTCAATTGATGT-TTTTTTTTAATTTATG-CTTTGC--
118 GGTCACACGCCGAGGAATTTTCAATT--T-TCGTTTTTCAAATTTCTGCCTTT-CAA
*
35981569 --AAAAATCAACTCATATTACGAGAGGTGAGTTGAGC
1 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGC
35981604 TTCGGGTCAC
Statistics
Matches: 348, Mismatches: 19, Indels: 28
0.88 0.05 0.07
Matches are distributed among these distances:
169 145 0.42
171 72 0.21
174 1 0.00
175 2 0.01
179 33 0.09
181 72 0.21
182 8 0.02
183 14 0.04
184 1 0.00
ACGTcount: A:0.30, C:0.18, G:0.20, T:0.31
Consensus pattern (170 bp):
AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATT
TCTGTTGTCAAAAAAAAATCAACTCGTATTGCGAGAGACGAGTTGAGCCTCAGGTCACACGCCGA
GGAATTTTCAATTTTCGTTTTTCAAATTTCTGCCTTTCAA
Found at i:35981594 original size:92 final size:88
Alignment explanation
Indices: 35981295--35981692 Score: 382
Period size: 87 Copynumber: 4.4 Consensus size: 88
35981285 CTGTTGTAAA
* * ** *
35981295 AAAAAATCAACTCGTATTGCGAGCGACGAGTTGAGCCTCAGGTCACACGCCGAGGAATTTTCAAT
1 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACACGCCGAGGTATTTTCAAT
*
35981360 -TTTCGTTTTTCAAATTTCTGCCTTTC
66 ATTT--TTTTTCAAATTTATG--TTTC
* *
35981386 AAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTCAGCCTCAGG--ACACGCTGAGGTATTTTC
1 ---AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACACGCCGAGGTATTTTC
35981449 AAT-TTTTTTTTC-AATTTATGTTTGTC
63 AATATTTTTTTTCAAATTTATG-TT-TC
* *
35981475 AAAAAAATCAACTCCTATTGCGAGAGGTGAGTTGAGCCTCAGGCCACACGCCGAGGTATTTTCAA
1 -AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACACGCCGAGGTATTTTCAA
**
35981540 TTGATGTTTTTTTTTAATTTATGCTTTGC
65 -T-AT-TTTTTTTCAAATTTATG-TTT-C
* * * *** *
35981569 -AAAAATCAACTCATATTACGAGAGGTGAGTTGAGCTTCGGGTCACATATCGAGGTATTTT-TAT
1 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACACGCCGAGGTATTTTCAAT
*
35981632 AATTTGTTTTACAAATTT-TGTTT-
66 -ATTT-TTTTTCAAATTTATGTTTC
* *
35981655 TAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCT
1 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT
35981693 TGGCTCACGT
Statistics
Matches: 263, Mismatches: 30, Indels: 29
0.82 0.09 0.09
Matches are distributed among these distances:
87 75 0.29
88 5 0.02
89 32 0.12
90 19 0.07
91 1 0.00
92 75 0.29
93 8 0.03
94 48 0.18
ACGTcount: A:0.29, C:0.17, G:0.19, T:0.35
Consensus pattern (88 bp):
AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACACGCCGAGGTATTTTCAAT
ATTTTTTTTCAAATTTATGTTTC
Found at i:35981625 original size:181 final size:178
Alignment explanation
Indices: 35981276--35981692 Score: 438
Period size: 181 Copynumber: 2.3 Consensus size: 178
35981266 GCTGAGGTAA
* * ** *
35981276 TTTCAATTTCTG-TTGTAAAAAAAAATCAACTCGTATTGCGAGCGACGAGTTGAGCCTCAGGTCA
1 TTTCAATTT-TGTTTGT--AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGCCA
*
35981340 CACGCCGAGGAATTTTCAATTTTCGTTTTTCAAATTTCTGCCTTTCAAAAAAAAATCAACTCATA
63 CACGCCGAGGAATTTTCAATTTTCGTTTTTCAAATTTATGCCTTTC---AAAAAATCAACTCATA
* * *
35981405 TTGCGAGAGGTGAGTTCAGCCTCAGGACACGCTGAGGTA-TTTT-CAATTTTTT
125 TTACGAGAGGTGAGTTCAGCCTCAGGACACGATGAGGTATTTTTACAATTTGTT
*
35981457 TTTCAATTTATGTTTGTCAAAAAAATCAACTCCTATTGCGAGAGGTGAGTTGAGCCTCAGGCCAC
1 TTTCAATTT-TGTTTGT-AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGCCAC
* * **
35981522 ACGCCGAGGTATTTTCAATTGATGT-TTTTTTTTAATTTATG-CTTTGC-AAAAATCAACTCATA
64 ACGCCGAGGAATTTTCAATT--T-TCGTTTTTCAAATTTATGCCTTT-CAAAAAATCAACTCATA
* * * * * *
35981584 TTACGAGAGGTGAGTTGAGCTTCGGGTCACATATCGAGGTATTTTTATAATTTGTT
125 TTACGAGAGGTGAGTTCAGCCTCAGGACAC-GAT-GAGGTATTTTTACAATTTGTT
* *
35981640 TTACAAATTTTGTTT-T--AAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCT
1 TTTC-AATTTTGTTTGTAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT
35981693 TGGCTCACGT
Statistics
Matches: 202, Mismatches: 24, Indels: 22
0.81 0.10 0.09
Matches are distributed among these distances:
179 75 0.37
180 1 0.00
181 78 0.39
182 13 0.06
183 29 0.14
184 6 0.03
ACGTcount: A:0.29, C:0.17, G:0.19, T:0.35
Consensus pattern (178 bp):
TTTCAATTTTGTTTGTAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGCCACAC
GCCGAGGAATTTTCAATTTTCGTTTTTCAAATTTATGCCTTTCAAAAAATCAACTCATATTACGA
GAGGTGAGTTCAGCCTCAGGACACGATGAGGTATTTTTACAATTTGTT
Found at i:35981716 original size:179 final size:177
Alignment explanation
Indices: 35981295--35981729 Score: 411
Period size: 179 Copynumber: 2.4 Consensus size: 177
35981285 CTGTTGTAAA
* * * * **
35981295 AAAAAATCAACTCGTATTGCGAG-CGACGAGTTGAGCCTCAGGTCACACGCCGAGGAATTTTCAA
1 AAAAAATCAACTCATATTGCGAGAAG-TGAGTTGAGCCTCAGGCCACACGCCGAGCTATTTTCAA
* ** * *
35981359 TT--T-TCGTTTTTCAAATTTCTGCCTTT-CAAAAAAAAATCAACTCATATTGCGAGAGGTGAGT
65 TTGATGT-TTTTTTTTAATTTATG-CTTTGC----AAAAATCAACTCATATTACGAGAGGTGAGT
* * *
35981420 TCAGCCTCAGGACACGCTGAGGTATTTTCAATTTTTTTTTCAATTTATGTTTGT
124 TCAGCCTCAGGACACGATGAGGTATTTTCAATTTGTTTTACAATTTATGTTTGT
* * *
35981474 CAAAAAAATCAACTCCTATTGCGAGAGGTGAGTTGAGCCTCAGGCCACACGCCGAGGTATTTTCA
1 --AAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAGGCCACACGCCGAGCTATTTTCA
*
35981539 ATTGATGTTTTTTTTTAATTTATGCTTTGCAAAAATCAACTCATATTACGAGAGGTGAGTTGAGC
64 ATTGATGTTTTTTTTTAATTTATGCTTTGCAAAAATCAACTCATATTACGAGAGGTGAGTTCAGC
* * * * *
35981604 TTCGGGTCACATATCGAGGTATTTTTATAATTTGTTTTACAAATTT-TGTTT-T
129 CTCAGGACAC-GAT-GAGGTA-TTTT-CAATTTGTTTTAC-AATTTATGTTTGT
* ** *
35981656 -AAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCT-TGGCTCACGTGCTGAGCTATTTTCAA
1 AAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAGGC-CACACGCCGAGCTATTTTCAA
**
35981719 TTTCTGTTTTT
65 TTGATGTTTTT
35981730 AATGTCTAGT
Statistics
Matches: 215, Mismatches: 28, Indels: 24
0.81 0.10 0.09
Matches are distributed among these distances:
178 3 0.01
179 101 0.47
180 1 0.00
181 65 0.30
182 10 0.05
183 29 0.13
184 6 0.03
ACGTcount: A:0.28, C:0.17, G:0.19, T:0.36
Consensus pattern (177 bp):
AAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAGGCCACACGCCGAGCTATTTTCAAT
TGATGTTTTTTTTTAATTTATGCTTTGCAAAAATCAACTCATATTACGAGAGGTGAGTTCAGCCT
CAGGACACGATGAGGTATTTTCAATTTGTTTTACAATTTATGTTTGT
Found at i:35981727 original size:87 final size:89
Alignment explanation
Indices: 35981296--35981792 Score: 362
Period size: 87 Copynumber: 5.6 Consensus size: 89
35981286 TGTTGTAAAA
* * ** * * *
35981296 AAAAATCAACTCGTATTGCGAGCGACGAGTTGAGCCTCAGG-TCACACGCCGAGGAATTTTCAAT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGCTCACATGCTGAGGTATTTTCAAT
* * **
35981360 TTTCGTTTTTCAAATTTCTGCCTTTCAAAA
66 TTT-GTTTTTCTAATTTATG--TTT---GT
* *
35981390 AAAAATCAACTCATATTGCGAGAGGTGAGTTCAGCCTCAGG---ACACGCTGAGGTATTTTCAAT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGCTCACATGCTGAGGTATTTTCAAT
35981452 TTT-TTTTTC-AATTTATGTTTGT
66 TTTGTTTTTCTAATTTATGTTTGT
* * *
35981474 CAAAAAAATCAACTCCTATTGCGAGAGGTGAGTTGAGCCTCAGGC-CACACGCCGAGGTATTTTC
1 ---AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGCTCACATGCTGAGGTATTTTC
* * *
35981538 AATTGATGTTTTTTTTTAATTTATGCTTTGC
63 AATT--T-TGTTTTTCTAATTTATG-TTTGT
* * * * *
35981569 AAAAATCAACTCATATTACGAGAGGTGAGTTGAGCTTC-GGGTCACAT-ATCGAGGTATTTTTAT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGCTCACATGCT-GAGGTATTTTCA-
* * *
35981632 AATTTGTTTTACAAATTT-TGTTT-T
64 ATTTTGTTTTTCTAATTTATGTTTGT
* * * *
35981656 AAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCT-TGGCTCACGTGCTGAGCTATTTTCAAT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGCTCACATGCTGAGGTATTTTCAAT
35981720 TTCTG-TTTT-TAATGTCTA-GTTT-T
66 TT-TGTTTTTCTAAT-T-TATGTTTGT
* * ** * * *
35981743 AAAGAGTCAATTCATATTGCGAGAAATGAGTTAAG-CTCAAGATCACATGC
1 AAA-AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGCTCACATGC
35981793 CGAGTAAAGA
Statistics
Matches: 333, Mismatches: 48, Indels: 50
0.77 0.11 0.12
Matches are distributed among these distances:
85 3 0.01
86 7 0.02
87 106 0.32
88 39 0.12
89 30 0.09
90 16 0.05
91 4 0.01
92 73 0.22
93 7 0.02
94 44 0.13
95 4 0.01
ACGTcount: A:0.29, C:0.17, G:0.19, T:0.35
Consensus pattern (89 bp):
AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGCTCACATGCTGAGGTATTTTCAAT
TTTGTTTTTCTAATTTATGTTTGT
Found at i:35982306 original size:28 final size:27
Alignment explanation
Indices: 35982258--35982340 Score: 109
Period size: 27 Copynumber: 3.1 Consensus size: 27
35982248 AAGTCCCCCC
*
35982258 AAAA-AAAAAACCTAA-CTAAAAAAAA
1 AAAAGAAAAAACCTAACCCAAAAAAAA
35982283 AAGAAGAAAAAACCTAACCCAAAAAAAA
1 AA-AAGAAAAAACCTAACCCAAAAAAAA
*
35982311 GAAAAG-AAAAACCTAACCCCAAAAAAA
1 -AAAAGAAAAAACCTAACCCAAAAAAAA
35982338 AAA
1 AAA
35982341 CCAAGAAACC
Statistics
Matches: 52, Mismatches: 2, Indels: 7
0.85 0.03 0.11
Matches are distributed among these distances:
25 2 0.04
26 5 0.10
27 31 0.60
28 12 0.23
29 2 0.04
ACGTcount: A:0.73, C:0.17, G:0.05, T:0.05
Consensus pattern (27 bp):
AAAAGAAAAAACCTAACCCAAAAAAAA
Found at i:35982353 original size:28 final size:27
Alignment explanation
Indices: 35982258--35982338 Score: 103
Period size: 28 Copynumber: 3.0 Consensus size: 27
35982248 AAGTCCCCCC
* *
35982258 AAAAAAAAAACCTAA-CTAAAAAAAA-
1 AAAAGAAAAACCTAACCCAAAAAAAAG
35982283 AAGAAGAAAAAACCTAACCCAAAAAAAAG
1 AA-AAG-AAAAACCTAACCCAAAAAAAAG
35982312 AAAAGAAAAACCTAACCCCAAAAAAAA
1 AAAAGAAAAACCTAA-CCCAAAAAAAA
35982339 AACCAAGAAA
Statistics
Matches: 49, Mismatches: 2, Indels: 7
0.84 0.03 0.12
Matches are distributed among these distances:
25 2 0.04
26 2 0.04
27 20 0.41
28 23 0.47
29 2 0.04
ACGTcount: A:0.73, C:0.17, G:0.05, T:0.05
Consensus pattern (27 bp):
AAAAGAAAAACCTAACCCAAAAAAAAG
Found at i:35982839 original size:16 final size:15
Alignment explanation
Indices: 35982815--35982849 Score: 52
Period size: 16 Copynumber: 2.3 Consensus size: 15
35982805 TAATTATTAT
35982815 TATTCTAATATTTTGA
1 TATTCTAATATTTT-A
*
35982831 TATTTTAATATTTTA
1 TATTCTAATATTTTA
35982846 TATT
1 TATT
35982850 ATTCACATCA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 5 0.28
16 13 0.72
ACGTcount: A:0.31, C:0.03, G:0.03, T:0.63
Consensus pattern (15 bp):
TATTCTAATATTTTA
Found at i:35983195 original size:46 final size:46
Alignment explanation
Indices: 35983128--35983218 Score: 164
Period size: 46 Copynumber: 2.0 Consensus size: 46
35983118 AGACAACACT
35983128 TGTTTAATAAGAAACCAATTTTGGGCGTCGCGAGAGTGCTAATACG
1 TGTTTAATAAGAAACCAATTTTGGGCGTCGCGAGAGTGCTAATACG
* *
35983174 TGTTTAATAAGATACCAATTTTGGGCGTCGCGAGGGTGCTAATAC
1 TGTTTAATAAGAAACCAATTTTGGGCGTCGCGAGAGTGCTAATAC
35983219 CTTCCTCGCG
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
46 43 1.00
ACGTcount: A:0.29, C:0.15, G:0.26, T:0.30
Consensus pattern (46 bp):
TGTTTAATAAGAAACCAATTTTGGGCGTCGCGAGAGTGCTAATACG
Found at i:35986240 original size:21 final size:21
Alignment explanation
Indices: 35986214--35986276 Score: 74
Period size: 21 Copynumber: 3.0 Consensus size: 21
35986204 TAGAGTAGAT
*
35986214 GCAGCAGCGATGGAGGCAGCG
1 GCAGCAGCGATGGAGGCAGAG
*
35986235 GCAGCAGCGACGGAGGCAGAG
1 GCAGCAGCGATGGAGGCAGAG
* *
35986256 GTAGCAGCAATGGCA-GCAGAG
1 GCAGCAGCGATGG-AGGCAGAG
35986277 CAGAGCAGAA
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
21 35 0.97
22 1 0.03
ACGTcount: A:0.29, C:0.22, G:0.44, T:0.05
Consensus pattern (21 bp):
GCAGCAGCGATGGAGGCAGAG
Found at i:35986635 original size:43 final size:43
Alignment explanation
Indices: 35986582--35986663 Score: 110
Period size: 43 Copynumber: 1.9 Consensus size: 43
35986572 TCTGCCAAAA
* * * *
35986582 TTAGCGGCGCTTTTCCCACAAATGCCGCTAAAAGCCATGGCTT
1 TTAGCAGCGCTTTTACCACAAACGCCACTAAAAGCCATGGCTT
* *
35986625 TTAGCAGCGCTTTTATCACAAACGCCACTAAAAGTCATG
1 TTAGCAGCGCTTTTACCACAAACGCCACTAAAAGCCATG
35986664 ATCTTTTGTG
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
43 33 1.00
ACGTcount: A:0.28, C:0.28, G:0.18, T:0.26
Consensus pattern (43 bp):
TTAGCAGCGCTTTTACCACAAACGCCACTAAAAGCCATGGCTT
Found at i:36003887 original size:9 final size:9
Alignment explanation
Indices: 36003852--36003884 Score: 57
Period size: 9 Copynumber: 3.7 Consensus size: 9
36003842 GATCTATAAG
36003852 ACAGAGGAA
1 ACAGAGGAA
36003861 ACAGAGGAA
1 ACAGAGGAA
*
36003870 ACAGAGTAA
1 ACAGAGGAA
36003879 ACAGAG
1 ACAGAG
36003885 TAAGCATTAC
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
9 23 1.00
ACGTcount: A:0.55, C:0.12, G:0.30, T:0.03
Consensus pattern (9 bp):
ACAGAGGAA
Found at i:36004342 original size:38 final size:37
Alignment explanation
Indices: 36004269--36004347 Score: 106
Period size: 38 Copynumber: 2.1 Consensus size: 37
36004259 TATTACGAAA
* *
36004269 TCTTACCCGGACATAATCTCCACACGAAGTTATCGGG
1 TCTTACCCGGACAAAATCTCCACACGAAGTCATCGGG
*
36004306 TCTTACCCGGACAAAAAT-TCCCACACGTAGTCATCGGG
1 TCTTACCCGGAC-AAAATCT-CCACACGAAGTCATCGGG
36004344 TCTT
1 TCTT
36004348 TAGAGCTCAG
Statistics
Matches: 37, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
37 13 0.35
38 24 0.65
ACGTcount: A:0.27, C:0.30, G:0.18, T:0.25
Consensus pattern (37 bp):
TCTTACCCGGACAAAATCTCCACACGAAGTCATCGGG
Found at i:36004608 original size:47 final size:47
Alignment explanation
Indices: 36004466--36004615 Score: 201
Period size: 47 Copynumber: 3.2 Consensus size: 47
36004456 CCCTTCGAGA
* * * * * * *
36004466 CTTATCACATTTATGCACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*** *
36004513 CCCGTCAGATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
36004560 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
36004607 CTTATCACA
1 CTTATCACA
36004616 ATTTAGAATT
Statistics
Matches: 88, Mismatches: 15, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
47 88 1.00
ACGTcount: A:0.27, C:0.32, G:0.11, T:0.31
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:36007291 original size:20 final size:20
Alignment explanation
Indices: 36007263--36007300 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
36007253 CTAGGAACTA
36007263 TGTGATCTGAGATCATGAGT
1 TGTGATCTGAGATCATGAGT
* *
36007283 TGTGGTCTGAGTTCATGA
1 TGTGATCTGAGATCATGA
36007301 TATATATTAC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.21, C:0.11, G:0.32, T:0.37
Consensus pattern (20 bp):
TGTGATCTGAGATCATGAGT
Found at i:36011147 original size:39 final size:39
Alignment explanation
Indices: 36011093--36011167 Score: 114
Period size: 39 Copynumber: 1.9 Consensus size: 39
36011083 AAAGTATGTA
** *
36011093 AGAAATGTCGTTTGATAATTAGAGGTTATTGTTTTCCTG
1 AGAAATGTCCCTTGATAATTAGAGATTATTGTTTTCCTG
*
36011132 AGAAATGTCCCTTGATGATTAGAGATTATTGTTTTC
1 AGAAATGTCCCTTGATAATTAGAGATTATTGTTTTC
36011168 TAGCTGATCT
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
39 32 1.00
ACGTcount: A:0.27, C:0.09, G:0.21, T:0.43
Consensus pattern (39 bp):
AGAAATGTCCCTTGATAATTAGAGATTATTGTTTTCCTG
Found at i:36017142 original size:40 final size:41
Alignment explanation
Indices: 36017087--36017168 Score: 123
Period size: 40 Copynumber: 2.0 Consensus size: 41
36017077 ATAATGCCCT
36017087 AAAGCCTAGCTATCATATTTTT-CTCCACTCTTTCCCCTTG
1 AAAGCCTAGCTATCATATTTTTCCTCCACTCTTTCCCCTTG
* *
36017127 AAAGCCTAG-TCATCATCTTTTTCCTCCATTCTTTCCCCTTG
1 AAAGCCTAGCT-ATCATATTTTTCCTCCACTCTTTCCCCTTG
36017168 A
1 A
36017169 CCGAAAATAT
Statistics
Matches: 38, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
39 1 0.03
40 19 0.50
41 18 0.47
ACGTcount: A:0.20, C:0.33, G:0.07, T:0.40
Consensus pattern (41 bp):
AAAGCCTAGCTATCATATTTTTCCTCCACTCTTTCCCCTTG
Found at i:36017562 original size:46 final size:46
Alignment explanation
Indices: 36017503--36017673 Score: 173
Period size: 46 Copynumber: 3.7 Consensus size: 46
36017493 TGATATGTGT
* * *
36017503 GCTAGTGTAAGACATGTCTGCGACATGAAACGGCCATAATATGAGA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCATAATATGAGA
* * * *
36017549 GCTAGTGTAAGACATGTATGGGATATGCATCGGCCCTGAGATATTTA-A
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCAT-A-ATA-TGAGA
* * ** * *
36017597 GCCAGTGTAAGACATGTCTGGGGCATGCATCGGCGTTGAGATGAGA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCATAATATGAGA
* *
36017643 ACTAGTGTAAGACATGTCTAGGACATGCATC
1 GCTAGTGTAAGACATGTCTGGGACATGCATC
36017674 AGCCTCACGA
Statistics
Matches: 101, Mismatches: 20, Indels: 8
0.78 0.16 0.06
Matches are distributed among these distances:
45 2 0.02
46 61 0.60
47 1 0.01
48 35 0.35
49 2 0.02
ACGTcount: A:0.30, C:0.17, G:0.29, T:0.25
Consensus pattern (46 bp):
GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCATAATATGAGA
Found at i:36017698 original size:94 final size:94
Alignment explanation
Indices: 36017503--36017716 Score: 223
Period size: 94 Copynumber: 2.3 Consensus size: 94
36017493 TGATATGTGT
* * *
36017503 GCTAGTGTAAGACATGTCTGCGACATGAAACGGCCATAATATGAGAGCTAGTGTAAGACATGTAT
1 GCTAGTGTAAGACATGTCTGGGACATGAAACGGCCATAAGATGAGAACTAGTGTAAGACATGTAT
* * * * ***
36017568 GGGATATGCATCGGCCCTGAGATATTTAA
66 AGGACATGCATCAGCCCTCAGATAGACAA
* * * * ** * *
36017597 GCCAGTGTAAGACATGTCTGGGGCATGCATCGGCGTTGAGATGAGAACTAGTGTAAGACATGTCT
1 GCTAGTGTAAGACATGTCTGGGACATGAAACGGCCATAAGATGAGAACTAGTGTAAGACATGTAT
*
36017662 AGGACATGCATCAG-CCTCACGATGGACAA
66 AGGACATGCATCAGCCCTCA-GATAGACAA
* *
36017691 GCTAGTGTAAGACCTATCTGGGACAT
1 GCTAGTGTAAGACATGTCTGGGACAT
36017717 TGGCTGGGAC
Statistics
Matches: 96, Mismatches: 23, Indels: 2
0.79 0.19 0.02
Matches are distributed among these distances:
93 4 0.04
94 92 0.96
ACGTcount: A:0.30, C:0.18, G:0.28, T:0.24
Consensus pattern (94 bp):
GCTAGTGTAAGACATGTCTGGGACATGAAACGGCCATAAGATGAGAACTAGTGTAAGACATGTAT
AGGACATGCATCAGCCCTCAGATAGACAA
Found at i:36023692 original size:45 final size:45
Alignment explanation
Indices: 36023632--36023798 Score: 226
Period size: 45 Copynumber: 3.7 Consensus size: 45
36023622 TGATATGTGT
* *
36023632 GCTAGTGTAATACATGTCTGGGACATGCATCGCCACAATATGAGA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGCCACAATACGAGA
*
36023677 GCTAGTGTAAGACATGCCTGGGACATGCATCGCCACAATACGAGA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGCCACAATACGAGA
* *******
36023722 GCTAGTGTAAGACATGTCTAGGACATGCATCGGTGTTGCGACGAGA
1 GCTAGTGTAAGACATGTCTGGGACATGCATC-GCCACAATACGAGA
36023768 GCTAGTGTAAGACATGTCTGGGACATGCATC
1 GCTAGTGTAAGACATGTCTGGGACATGCATC
36023799 AGCCTCGCGA
Statistics
Matches: 108, Mismatches: 13, Indels: 1
0.89 0.11 0.01
Matches are distributed among these distances:
45 71 0.66
46 37 0.34
ACGTcount: A:0.29, C:0.20, G:0.28, T:0.23
Consensus pattern (45 bp):
GCTAGTGTAAGACATGTCTGGGACATGCATCGCCACAATACGAGA
Found at i:36025113 original size:20 final size:21
Alignment explanation
Indices: 36025075--36025113 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
36025065 TCTTAGTGAT
36025075 CACACGGGCATGTTGCCCTTC
1 CACACGGGCATGTTGCCCTTC
36025096 CACACGGGCATG-TGCCCT
1 CACACGGGCATGTTGCCCT
36025114 GTTTTAAGGG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 6 0.33
21 12 0.67
ACGTcount: A:0.15, C:0.38, G:0.26, T:0.21
Consensus pattern (21 bp):
CACACGGGCATGTTGCCCTTC
Found at i:36027269 original size:139 final size:139
Alignment explanation
Indices: 36027019--36027293 Score: 532
Period size: 139 Copynumber: 2.0 Consensus size: 139
36027009 CGAAATATTC
*
36027019 GGCCGTAAGGGCAAGTTGAGCCCGAGATTCATTGGGCCGTACGAAATCTCTGAACGAGTTGGTCC
1 GGCCGTAAGGGCAAGTTGAGCCCGAGATTCATTGGGCCGTACGAAATCTCCGAACGAGTTGGTCC
*
36027084 GGTTGCGTATAGATTGATTTTGCCCCTTGAACTTGAAAAGATTCACGATGTCTTTCATATTTCGA
66 GGTTGCGTATAGATTGATTTTGCCCCCTGAACTTGAAAAGATTCACGATGTCTTTCATATTTCGA
36027149 TGCTTCAAT
131 TGCTTCAAT
36027158 GGCCGTAAGGGCAAGTTGAGCCCGAGATTCATTGGGCCGTACGAAATCTCCGAACGAGTTGGTCC
1 GGCCGTAAGGGCAAGTTGAGCCCGAGATTCATTGGGCCGTACGAAATCTCCGAACGAGTTGGTCC
36027223 GGTTGCGTATAGATTGATTTTGCCCCCTGAACTTGAAAAGATTCACGATGTCTTTCATATTTCGA
66 GGTTGCGTATAGATTGATTTTGCCCCCTGAACTTGAAAAGATTCACGATGTCTTTCATATTTCGA
36027288 TGCTTC
131 TGCTTC
36027294 GACGCTATAG
Statistics
Matches: 134, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
139 134 1.00
ACGTcount: A:0.23, C:0.21, G:0.25, T:0.30
Consensus pattern (139 bp):
GGCCGTAAGGGCAAGTTGAGCCCGAGATTCATTGGGCCGTACGAAATCTCCGAACGAGTTGGTCC
GGTTGCGTATAGATTGATTTTGCCCCCTGAACTTGAAAAGATTCACGATGTCTTTCATATTTCGA
TGCTTCAAT
Found at i:36027644 original size:58 final size:58
Alignment explanation
Indices: 36027574--36027688 Score: 221
Period size: 58 Copynumber: 2.0 Consensus size: 58
36027564 TGTGACAGCC
36027574 CAAAATTGACCCTAGTCGGGAAGTGGTTTCGGGACCGCTAAACCGAGTCACCGAAATG
1 CAAAATTGACCCTAGTCGGGAAGTGGTTTCGGGACCGCTAAACCGAGTCACCGAAATG
*
36027632 CAAAATTGACCCTAGTCGGGAAGTGGTTTCGGGACCGCTAAACCGAGTCATCGAAAT
1 CAAAATTGACCCTAGTCGGGAAGTGGTTTCGGGACCGCTAAACCGAGTCACCGAAAT
36027689 TTAGGGTATT
Statistics
Matches: 56, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
58 56 1.00
ACGTcount: A:0.30, C:0.23, G:0.27, T:0.20
Consensus pattern (58 bp):
CAAAATTGACCCTAGTCGGGAAGTGGTTTCGGGACCGCTAAACCGAGTCACCGAAATG
Found at i:36036975 original size:40 final size:40
Alignment explanation
Indices: 36036704--36036968 Score: 274
Period size: 40 Copynumber: 6.7 Consensus size: 40
36036694 TTGAATGATG
* * * *
36036704 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* * * * * *
36036744 TCCGGACGAAGAT-CCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGC-GAGTTACTAAA
* *
36036784 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
* * *
36036824 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
36036864 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
36036903 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
36036944 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
36036969 AACGAGTAGC
Statistics
Matches: 205, Mismatches: 15, Indels: 10
0.89 0.07 0.04
Matches are distributed among these distances:
39 35 0.17
40 160 0.78
41 10 0.05
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:36036990 original size:79 final size:77
Alignment explanation
Indices: 36036797--36037001 Score: 243
Period size: 79 Copynumber: 2.6 Consensus size: 77
36036787 GGACTAAGAT
*
36036797 CCGAAGGCATTTGTGCGAGATACTAAATCCGGACTAAGATCCGAAGGCATTTGTGCGAGATACTA
1 CCGAAGGCATTTGTGCGAGATACTAAATCCGG-TTAAG-TCCGAAGGCATTTGTGCGAGATACTA
*
36036862 ATTCCGGGCTAAGC
64 ATACCGGGCTAAGC
* *
36036876 CCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACT-
1 CCGAAGGCATTTGTGCGAGATACTAAATCC-GGTTAAGT-CCGAAGGCATTTGTGCGAGATACTA
*
36036940 ATAACCGGGCTATGTC
64 AT-ACCGGGCTAAG-C
** * *
36036956 CCGAAGGCATTTGAACGAG-TAGCTATATCCGGTTAAATTCCGAAGG
1 CCGAAGGCATTTGTGCGAGATA-CTAAATCCGGTT-AAGTCCGAAGG
36037002 TACGTGATTT
Statistics
Matches: 111, Mismatches: 9, Indels: 12
0.84 0.07 0.09
Matches are distributed among these distances:
78 3 0.03
79 78 0.70
80 30 0.27
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.25
Consensus pattern (77 bp):
CCGAAGGCATTTGTGCGAGATACTAAATCCGGTTAAGTCCGAAGGCATTTGTGCGAGATACTAAT
ACCGGGCTAAGC
Found at i:36043978 original size:200 final size:200
Alignment explanation
Indices: 36043624--36044024 Score: 757
Period size: 200 Copynumber: 2.0 Consensus size: 200
36043614 CCGAAAATTC
*
36043624 TAAGGATGGAGGAAGGAGTTCTTGCTTCATGTTTGGTTTGGAAGAGGATTAGGAGGAGGTTTGGC
1 TAAGGAAGGAGGAAGGAGTTCTTGCTTCATGTTTGGTTTGGAAGAGGATTAGGAGGAGGTTTGGC
*
36043689 CATACTTGTATCTAGATCAAGGTAAGTTTGAGGTTGTGCCATGAGATTCATGCATGTTTTTAGTT
66 CATACTTGTATCTAGATCAAGGTAAGTTTGAGGCTGTGCCATGAGATTCATGCATGTTTTTAGTT
* *
36043754 GCTAGCTTGAGTTCTAATTAGCCCATGGTTCAAATCTTTGCTATGTCATGGGGATGATATTCGGC
131 GCTAGCTTGAGTTCTAACTAGCCCATGGTTCAAATCTTTGCTATGTCATGCGGATGATATTCGGC
36043819 CTAGG
196 CTAGG
36043824 TAAGGAAGGAGGAAGGAGTTCTTGCTTCATGTTTGGTTTGGAAGAGGATTAGGAGGAGGTTTGGC
1 TAAGGAAGGAGGAAGGAGTTCTTGCTTCATGTTTGGTTTGGAAGAGGATTAGGAGGAGGTTTGGC
*
36043889 CATACTTGTATCTAGATCAAGGTATGTTTGAGGCTGTGCCATGAGATTCATGCATGTTTTTAGTT
66 CATACTTGTATCTAGATCAAGGTAAGTTTGAGGCTGTGCCATGAGATTCATGCATGTTTTTAGTT
36043954 GCTAGCTTGAGTTCTAACTAGCCCATGGTTCAAATCTTTGCTATGTCATGCGGATGATATTCGGC
131 GCTAGCTTGAGTTCTAACTAGCCCATGGTTCAAATCTTTGCTATGTCATGCGGATGATATTCGGC
36044019 CTAGG
196 CTAGG
36044024 T
1 T
36044025 GGATTTTGTG
Statistics
Matches: 196, Mismatches: 5, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
200 196 1.00
ACGTcount: A:0.23, C:0.13, G:0.29, T:0.35
Consensus pattern (200 bp):
TAAGGAAGGAGGAAGGAGTTCTTGCTTCATGTTTGGTTTGGAAGAGGATTAGGAGGAGGTTTGGC
CATACTTGTATCTAGATCAAGGTAAGTTTGAGGCTGTGCCATGAGATTCATGCATGTTTTTAGTT
GCTAGCTTGAGTTCTAACTAGCCCATGGTTCAAATCTTTGCTATGTCATGCGGATGATATTCGGC
CTAGG
Found at i:36044989 original size:40 final size:39
Alignment explanation
Indices: 36044905--36045054 Score: 198
Period size: 39 Copynumber: 3.8 Consensus size: 39
36044895 TTGAATGATG
* *
36044905 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTA-AGTGAC-CAT
1 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGA-T-ACTAAT
* *
36044944 ATCCGGACTAAGATCCGAAGGCATTTGTGCGAGATACTAAT
1 -TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT
36044985 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
36045024 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAG
1 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAG
36045055 GGGTTAAGTC
Statistics
Matches: 100, Mismatches: 7, Indels: 7
0.88 0.06 0.06
Matches are distributed among these distances:
39 58 0.58
40 30 0.30
41 11 0.11
42 1 0.01
ACGTcount: A:0.25, C:0.23, G:0.29, T:0.23
Consensus pattern (39 bp):
TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
Found at i:36046318 original size:39 final size:39
Alignment explanation
Indices: 36046264--36046340 Score: 154
Period size: 39 Copynumber: 2.0 Consensus size: 39
36046254 TCCCTGTAAC
36046264 ATGGGAGACTTTGACTAATAAACTGTACTAATTGGCCCG
1 ATGGGAGACTTTGACTAATAAACTGTACTAATTGGCCCG
36046303 ATGGGAGACTTTGACTAATAAACTGTACTAATTGGCCC
1 ATGGGAGACTTTGACTAATAAACTGTACTAATTGGCCC
36046341 AACCAAAAAT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 38 1.00
ACGTcount: A:0.31, C:0.18, G:0.22, T:0.29
Consensus pattern (39 bp):
ATGGGAGACTTTGACTAATAAACTGTACTAATTGGCCCG
Found at i:36049240 original size:27 final size:27
Alignment explanation
Indices: 36049210--36049387 Score: 180
Period size: 27 Copynumber: 6.6 Consensus size: 27
36049200 ATATTGAGCC
* *
36049210 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
* *
36049237 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
*
36049264 CGCACACTTAGTGCTACATAGTCAGACT
1 CGCACACTTAGTGCTACATAATCA-ACT
** ** *
36049292 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
* **
36049319 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAATCAACT
* *
36049346 CGCACACTTAGTGCAACATAGTCGAA-T
1 CGCACACTTAGTGCTACATAATC-AACT
36049373 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
36049388 GTACAATTTA
Statistics
Matches: 129, Mismatches: 18, Indels: 8
0.83 0.12 0.05
Matches are distributed among these distances:
27 104 0.81
28 25 0.19
ACGTcount: A:0.29, C:0.28, G:0.16, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:36049349 original size:82 final size:81
Alignment explanation
Indices: 36049231--36049386 Score: 224
Period size: 82 Copynumber: 1.9 Consensus size: 81
36049221 TGCTATATAA
* * *
36049231 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAGACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTC-GAATCGCA
36049296 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
36049313 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCGAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCGAATCGCA
36049377 CACTTAGTGC
65 CACTTAGTGC
36049387 TGTACAATTT
Statistics
Matches: 66, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
81 18 0.27
82 48 0.73
ACGTcount: A:0.28, C:0.28, G:0.17, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCGAATCGCAC
ACTTAGTGCCGCATGG
Found at i:36056768 original size:40 final size:40
Alignment explanation
Indices: 36056709--36056856 Score: 251
Period size: 40 Copynumber: 3.7 Consensus size: 40
36056699 GAGCATTGGA
36056709 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
* *
36056749 ATATATCCGGGCTATGACCCGAAGGCAATTATGCGAGATG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
*
36056789 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCAAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
* *
36056829 ATATGTCCGGGTTAAGACCCGAAGGCAA
1 ATATATCCGGGCTAAGACCCGAAGGCAA
36056857 ATGTGTTTGC
Statistics
Matches: 101, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
40 101 1.00
ACGTcount: A:0.31, C:0.20, G:0.27, T:0.22
Consensus pattern (40 bp):
ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
Found at i:36059669 original size:40 final size:40
Alignment explanation
Indices: 36059637--36059869 Score: 322
Period size: 40 Copynumber: 5.8 Consensus size: 40
36059627 CCAGCATGAT
* * * *
36059637 TGCTCTTTGGGACCTAGCCCGGATATAACACCAGCACGAA
1 TGCTCTTTGGGACTTAGCCCGGATACATCACTAGCACGAA
* *
36059677 TGCTTTTTCGGAACTTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTT-GGGACTTAGCCCGGATACATCACTAGCACGAA
* *
36059718 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
1 TGCTCTTTGGGACTTAGCCCGGATACATCACTAGCACGAA
*
36059758 TGCTCTTTGGAACTTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTTGGGACTTAGCCCGGATACATCACTAGCACGAA
**
36059798 TGCTCTTTGGGACTTAGCTTGGATACATCACTAGCACGAA
1 TGCTCTTTGGGACTTAGCCCGGATACATCACTAGCACGAA
* * * *
36059838 TGCTCTTCGGGACTTAGCTCGGGTATATCACT
1 TGCTCTTTGGGACTTAGCCCGGATACATCACT
36059870 CTCAATTCTC
Statistics
Matches: 172, Mismatches: 20, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
40 139 0.81
41 33 0.19
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.27
Consensus pattern (40 bp):
TGCTCTTTGGGACTTAGCCCGGATACATCACTAGCACGAA
Found at i:36059851 original size:120 final size:121
Alignment explanation
Indices: 36059637--36059869 Score: 360
Period size: 120 Copynumber: 1.9 Consensus size: 121
36059627 CCAGCATGAT
* * *
36059637 TGCTCTTTGGGACCTAGCCCGGATATAACACCAGCACGAATGCTTTTTCGGAACTTAGCCCGGAT
1 TGCTCTTTGGAACCTAGCCCGGATACAACACCAGCACGAATGCTCTTTCGGAACTTAGCCCGGAT
36059702 ACATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
66 ACATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
* * * * **
36059758 TGCTCTTTGGAACTTAGCCCGGATACATCACTAGCACGAATGCTCTTT-GGGACTTAGCTTGGAT
1 TGCTCTTTGGAACCTAGCCCGGATACAACACCAGCACGAATGCTCTTTCGGAACTTAGCCCGGAT
* *
36059822 ACATCACTAGCACGAATGCTCTTCGGGACTTAGCTCGGGTATATCACT
66 ACATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATATATCACT
36059870 CTCAATTCTC
Statistics
Matches: 101, Mismatches: 11, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
120 59 0.58
121 42 0.42
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.27
Consensus pattern (121 bp):
TGCTCTTTGGAACCTAGCCCGGATACAACACCAGCACGAATGCTCTTTCGGAACTTAGCCCGGAT
ACATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
Found at i:36061197 original size:37 final size:37
Alignment explanation
Indices: 36061139--36061320 Score: 301
Period size: 37 Copynumber: 4.9 Consensus size: 37
36061129 GCTCAGACGA
* * * *
36061139 AATCTCCACACGAAGTTATCGGGTCTTACCTGGACAA
1 AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAT
36061176 AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAT
1 AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAT
*
36061213 AATCTCCACATGTAGTCATCGGGTCTTACCCGGACAT
1 AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAT
*
36061250 AATCTCCACATGTAGTCATCGGGTCTTACCCGGACAT
1 AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAT
*
36061287 AATCTCCACACGTAGTCATCGGGTTTTACCCGGA
1 AATCTCCACACGTAGTCATCGGGTCTTACCCGGA
36061321 ATATATTTCC
Statistics
Matches: 138, Mismatches: 7, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 138 1.00
ACGTcount: A:0.25, C:0.30, G:0.19, T:0.26
Consensus pattern (37 bp):
AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAT
Found at i:36061534 original size:47 final size:47
Alignment explanation
Indices: 36061483--36061600 Score: 182
Period size: 47 Copynumber: 2.5 Consensus size: 47
36061473 TTTCACACTA
* * * *
36061483 GCCATTCGGCTTTACCACATATATGCATGTTCATATTCATCACATTG
1 GCCATTCGGCCTTATCACATATATGCATGCTCACATTCATCACATTG
*
36061530 GCCATTCGGCCTTATCACACATATGCATGCTCACATTCATCACATTG
1 GCCATTCGGCCTTATCACATATATGCATGCTCACATTCATCACATTG
*
36061577 GCCATTCGGCCTTATCTCATATAT
1 GCCATTCGGCCTTATCACATATAT
36061601 ACACATTCGC
Statistics
Matches: 64, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
47 64 1.00
ACGTcount: A:0.25, C:0.29, G:0.13, T:0.34
Consensus pattern (47 bp):
GCCATTCGGCCTTATCACATATATGCATGCTCACATTCATCACATTG
Found at i:36061614 original size:47 final size:47
Alignment explanation
Indices: 36061517--36061621 Score: 147
Period size: 47 Copynumber: 2.2 Consensus size: 47
36061507 GCATGTTCAT
* **
36061517 ATTCATCACATTGGCCATTCGGCCTTATCACACATATGCATGCTCAC
1 ATTCATCACATTGGCCATTCGGCCTTATCACACATATACACACTCAC
* * * *
36061564 ATTCATCACATTGGCCATTCGGCCTTATCTCATATATACACATTCGC
1 ATTCATCACATTGGCCATTCGGCCTTATCACACATATACACACTCAC
36061611 ATTCATCACAT
1 ATTCATCACAT
36061622 AAAATATCAA
Statistics
Matches: 51, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
47 51 1.00
ACGTcount: A:0.27, C:0.30, G:0.10, T:0.32
Consensus pattern (47 bp):
ATTCATCACATTGGCCATTCGGCCTTATCACACATATACACACTCAC
Found at i:36070891 original size:74 final size:74
Alignment explanation
Indices: 36070802--36071103 Score: 568
Period size: 74 Copynumber: 4.1 Consensus size: 74
36070792 ACGTATGATA
36070802 ATTCAATTATAGAAATGCTATTAGTTTTCACACAATCACATGAAAAAAAATCAATAAAACATAGT
1 ATTCAATTATAGAAATGCTATTAGTTTTCACACAATCACATGAAAAAAAATCAATAAAACATAGT
36070867 TTGTATTTT
66 TTGTATTTT
36070876 ATTCAATTATAGAAATGCTATTAGTTTTCACACAATCACATGAAAAAAAATCAATAAAACATAGT
1 ATTCAATTATAGAAATGCTATTAGTTTTCACACAATCACATGAAAAAAAATCAATAAAACATAGT
36070941 TTGTATTTT
66 TTGTATTTT
36070950 ATTCAATTATAGAAATGCTATTAGTTTTCACACAATCACATGAAAAAAAATCAATAAAACATAGT
1 ATTCAATTATAGAAATGCTATTAGTTTTCACACAATCACATGAAAAAAAATCAATAAAACATAGT
36071015 TTGTATTTT
66 TTGTATTTT
* * *
36071024 ATTCAATTATAGAAATGCTATTAGTTTTCACACAATCACATGAAAAACACATCAATTAAACATGG
1 ATTCAATTATAGAAATGCTATTAGTTTTCACACAATCACATGAAAAA-AAATCAATAAAACATAG
36071089 TTTGTATTTT
65 TTTGTATTTT
36071099 ATTCA
1 ATTCA
36071104 TTTTAGTCAT
Statistics
Matches: 224, Mismatches: 3, Indels: 1
0.98 0.01 0.00
Matches are distributed among these distances:
74 195 0.87
75 29 0.13
ACGTcount: A:0.43, C:0.13, G:0.08, T:0.35
Consensus pattern (74 bp):
ATTCAATTATAGAAATGCTATTAGTTTTCACACAATCACATGAAAAAAAATCAATAAAACATAGT
TTGTATTTT
Found at i:36071440 original size:55 final size:53
Alignment explanation
Indices: 36071353--36071586 Score: 237
Period size: 55 Copynumber: 4.4 Consensus size: 53
36071343 ATTAGGGTTT
* *
36071353 AAGGATACCATGTAAGACCATGCCAAGGCATGGATATTGGTAAGGTTTCTAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGG-CATTGGTAA-GTTTCTAAGGC
* * * *
36071408 AAGGATATCATGTAAGACCATGTCAAGACATGGCATTGATAAGTTACTATAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAGTT--TCTAAGGC
* * * * *
36071463 AAAGG-TCCCATGTAAGACCATGCCAAGGCATAGCATTGGTGAG-TTCATAAAGC
1 -AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAGTTTC-TAAGGC
* ** *
36071516 AAGGATACCATGTAAGACCATGTCGGGACATGGCAATGGTAAGTTTC-AA---
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAGTTTCTAAGGC
36071565 AAGGATACCATGTAAGACCATG
1 AAGGATACCATGTAAGACCATG
36071587 ATAAGTGTAA
Statistics
Matches: 150, Mismatches: 23, Indels: 18
0.79 0.12 0.09
Matches are distributed among these distances:
49 22 0.15
52 7 0.05
53 38 0.25
54 11 0.07
55 68 0.45
56 4 0.03
ACGTcount: A:0.35, C:0.17, G:0.25, T:0.23
Consensus pattern (53 bp):
AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAGTTTCTAAGGC
Found at i:36071559 original size:108 final size:110
Alignment explanation
Indices: 36071360--36071560 Score: 291
Period size: 108 Copynumber: 1.8 Consensus size: 110
36071350 TTTAAGGATA
* * * *
36071360 CCATGTAAGACCATGCCAAGGCATGGATATTGGTAAGGTTTCTAAGGCAAGGATATCATGTAAGA
1 CCATGTAAGACCATGCCAAGGCATAGACATTGGTAAGGTTTCTAAAGCAAGGATACCATGTAAGA
*
36071425 CCATGTCAAGACATGGCATTGATAAGTTACTATAAGGCAAAGGTC
66 CCATGTCAAGACATGGCAATGATAAGTTACTATAAGGCAAAGGTC
*
36071470 CCATGTAAGACCATGCCAAGGCATAG-CATTGGTGA-G-TTCATAAAGCAAGGATACCATGTAAG
1 CCATGTAAGACCATGCCAAGGCATAGACATTGGTAAGGTTTC-TAAAGCAAGGATACCATGTAAG
** *
36071532 ACCATGTCGGGACATGGCAATGGTAAGTT
65 ACCATGTCAAGACATGGCAATGATAAGTT
36071561 TCAAAAGGAT
Statistics
Matches: 81, Mismatches: 9, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
107 3 0.04
108 46 0.57
109 7 0.09
110 25 0.31
ACGTcount: A:0.34, C:0.17, G:0.25, T:0.23
Consensus pattern (110 bp):
CCATGTAAGACCATGCCAAGGCATAGACATTGGTAAGGTTTCTAAAGCAAGGATACCATGTAAGA
CCATGTCAAGACATGGCAATGATAAGTTACTATAAGGCAAAGGTC
Found at i:36072164 original size:33 final size:34
Alignment explanation
Indices: 36072122--36072193 Score: 119
Period size: 34 Copynumber: 2.1 Consensus size: 34
36072112 GTGAATAACA
36072122 CAGTATCAGTACAGTCT-GGCCAAAGCCCTTTTT
1 CAGTATCAGTACAGTCTGGGCCAAAGCCCTTTTT
**
36072155 CAGTATCAGTACAGTCTGGGCCTTAGCCCTTTTT
1 CAGTATCAGTACAGTCTGGGCCAAAGCCCTTTTT
36072189 CAGTA
1 CAGTA
36072194 GCAATGTGGG
Statistics
Matches: 36, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
33 17 0.47
34 19 0.53
ACGTcount: A:0.22, C:0.26, G:0.19, T:0.32
Consensus pattern (34 bp):
CAGTATCAGTACAGTCTGGGCCAAAGCCCTTTTT
Found at i:36075940 original size:19 final size:19
Alignment explanation
Indices: 36075918--36075965 Score: 60
Period size: 19 Copynumber: 2.5 Consensus size: 19
36075908 GAATGCTTGC
*
36075918 ACACATAGTGTATAATGGA
1 ACACATAGTGCATAATGGA
* * *
36075937 ACACATAATGCATATTGGC
1 ACACATAGTGCATAATGGA
36075956 ACACATAGTG
1 ACACATAGTG
36075966 AATCATTGGA
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.40, C:0.17, G:0.19, T:0.25
Consensus pattern (19 bp):
ACACATAGTGCATAATGGA
Found at i:36080313 original size:43 final size:43
Alignment explanation
Indices: 36080266--36080386 Score: 129
Period size: 42 Copynumber: 2.8 Consensus size: 43
36080256 CCTCGATTGA
* *
36080266 GATTTACGTATAAGACCATTTCTGGGACATCGGCATCG-TATCT
1 GATTTACGTGTAAGACCATGTCTGGGACATCGGCATCGATAT-T
* **
36080309 GATTT-CGTGTAAGACCCTGTCTGGGACAGAGGCATCGATATT
1 GATTTACGTGTAAGACCATGTCTGGGACATCGGCATCGATATT
* * * * *
36080351 GAGTTACATGTAAGACCACGTCCGGGACGTCGGCAT
1 GATTTACGTGTAAGACCATGTCTGGGACATCGGCAT
36080387 TGTACTTGTT
Statistics
Matches: 63, Mismatches: 13, Indels: 4
0.79 0.16 0.05
Matches are distributed among these distances:
42 32 0.51
43 31 0.49
ACGTcount: A:0.25, C:0.21, G:0.26, T:0.27
Consensus pattern (43 bp):
GATTTACGTGTAAGACCATGTCTGGGACATCGGCATCGATATT
Found at i:36080332 original size:42 final size:42
Alignment explanation
Indices: 36080266--36080386 Score: 111
Period size: 43 Copynumber: 2.8 Consensus size: 42
36080256 CCTCGATTGA
* * *
36080266 GATTTACGTATAAGACCATTTCTGGGACATCGGCATCG-TATCT
1 GATTT-CGTGTAAGACCCTGTCTGGGACATCGGCATCGATAT-T
**
36080309 GATTTCGTGTAAGACCCTGTCTGGGACAGAGGCATCGATATT
1 GATTTCGTGTAAGACCCTGTCTGGGACATCGGCATCGATATT
* * * *
36080351 GAGTTACATGTAAGACCAC-GTCCGGGACGTCGGCAT
1 GA-TTTCGTGTAAGACC-CTGTCTGGGACATCGGCAT
36080387 TGTACTTGTT
Statistics
Matches: 64, Mismatches: 11, Indels: 6
0.79 0.14 0.07
Matches are distributed among these distances:
42 30 0.47
43 33 0.52
44 1 0.02
ACGTcount: A:0.25, C:0.21, G:0.26, T:0.27
Consensus pattern (42 bp):
GATTTCGTGTAAGACCCTGTCTGGGACATCGGCATCGATATT
Found at i:36082082 original size:33 final size:34
Alignment explanation
Indices: 36082040--36082112 Score: 105
Period size: 34 Copynumber: 2.2 Consensus size: 34
36082030 GTATGCATCT
36082040 CTGATACTG-TACTG-AATTGGGCTAAGGCCCACA
1 CTGATACTGTTACTGTAA-TGGGCTAAGGCCCACA
**
36082073 CTGATACTGTTACTGTAATGGGCTAAGGCCTGCA
1 CTGATACTGTTACTGTAATGGGCTAAGGCCCACA
36082107 CTGATA
1 CTGATA
36082113 TTGCCACTGA
Statistics
Matches: 36, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
33 9 0.25
34 25 0.69
35 2 0.06
ACGTcount: A:0.26, C:0.22, G:0.25, T:0.27
Consensus pattern (34 bp):
CTGATACTGTTACTGTAATGGGCTAAGGCCCACA
Found at i:36082128 original size:34 final size:34
Alignment explanation
Indices: 36082040--36082143 Score: 97
Period size: 34 Copynumber: 3.1 Consensus size: 34
36082030 GTATGCATCT
* *
36082040 CTGATACTG-TACTG-AATTGGGCTAAGGCCCACA
1 CTGATACTGCCACTGTAA-TGGGCTAAGGCCTACA
** *
36082073 CTGATACTGTTACTGTAATGGGCTAAGGCCTGCA
1 CTGATACTGCCACTGTAATGGGCTAAGGCCTACA
* * *
36082107 CTGATATTGCCACTG-ATATGGGCTTAGGCCTAGA
1 CTGATACTGCCACTGTA-ATGGGCTAAGGCCTACA
36082141 CTG
1 CTG
36082144 CTTTGCACTG
Statistics
Matches: 60, Mismatches: 8, Indels: 5
0.82 0.11 0.07
Matches are distributed among these distances:
33 10 0.17
34 48 0.80
35 2 0.03
ACGTcount: A:0.24, C:0.22, G:0.26, T:0.28
Consensus pattern (34 bp):
CTGATACTGCCACTGTAATGGGCTAAGGCCTACA
Found at i:36088267 original size:102 final size:102
Alignment explanation
Indices: 36088091--36088302 Score: 399
Period size: 102 Copynumber: 2.1 Consensus size: 102
36088081 ATGTGTGAAA
*
36088091 TGAACTTGAAAAGATTCACGATGTCTTTCATGTTTCGATGCTTCGACGTTATAGATCCGATCCGT
1 TGAACTTGAAAAGATTCACGATGTCTTTCATGTTTCGATGCTTCAACGTTATAGATCCGATCCGT
*
36088156 CACATGTGATTAATCCCTCAGAAGTTGAAATTCAATT
66 CACATGTGATTAATCCCTCAGAAGTTGAAATTCAATC
36088193 TGAACTTGAAAAGATTCACGATGTCTTTCATGTTTCGATGCTTCAACGTTATAGATCCGATCCGT
1 TGAACTTGAAAAGATTCACGATGTCTTTCATGTTTCGATGCTTCAACGTTATAGATCCGATCCGT
36088258 CACATGTGATTAATCCCTCAGAAGTTGAAATTCAATC
66 CACATGTGATTAATCCCTCAGAAGTTGAAATTCAATC
36088295 TG-ACTTGA
1 TGAACTTGA
36088303 GTTATGAAGA
Statistics
Matches: 108, Mismatches: 2, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
101 6 0.06
102 102 0.94
ACGTcount: A:0.29, C:0.20, G:0.17, T:0.34
Consensus pattern (102 bp):
TGAACTTGAAAAGATTCACGATGTCTTTCATGTTTCGATGCTTCAACGTTATAGATCCGATCCGT
CACATGTGATTAATCCCTCAGAAGTTGAAATTCAATC
Found at i:36088898 original size:82 final size:82
Alignment explanation
Indices: 36088761--36088923 Score: 317
Period size: 82 Copynumber: 2.0 Consensus size: 82
36088751 ACAACCCAAA
*
36088761 ATTGACCCTAGTCGGGAAGTGGTTTTGGGACCGCTAAACCGAGTCACCGAAATGTTTGAAGGTGA
1 ATTGACCCTAGTCGGGAAGTGGTTTCGGGACCGCTAAACCGAGTCACCGAAATGTTTGAAGGTGA
36088826 TATTTATTGTCTAGAAT
66 TATTTATTGTCTAGAAT
36088843 ATTGACCCTAGTCGGGAAGTGGTTTCGGGACCGCTAAACCGAGTCACCGAAATGTTTGAAGGTGA
1 ATTGACCCTAGTCGGGAAGTGGTTTCGGGACCGCTAAACCGAGTCACCGAAATGTTTGAAGGTGA
36088908 TATTTATTGTCTAGAA
66 TATTTATTGTCTAGAA
36088924 ATGTAATTAT
Statistics
Matches: 80, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
82 80 1.00
ACGTcount: A:0.27, C:0.17, G:0.27, T:0.29
Consensus pattern (82 bp):
ATTGACCCTAGTCGGGAAGTGGTTTCGGGACCGCTAAACCGAGTCACCGAAATGTTTGAAGGTGA
TATTTATTGTCTAGAAT
Found at i:36090484 original size:79 final size:79
Alignment explanation
Indices: 36090346--36090565 Score: 225
Period size: 79 Copynumber: 2.8 Consensus size: 79
36090336 TTGAATGATG
* * * **
36090346 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGTATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATATCCGGGTTAAG-TCCGAAGGTATT
36090410 TGTGCGAGATACTA-A
64 TGTGCGAGATACTATA
* * *
36090425 TTCCGGGCTAAG-CCCAAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATT
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGTTAAGT-CCGAAGGTATT
*
36090489 TGTGCGAGTTACTATA
64 TGTGCGAGATACTATA
* * ** *
36090505 ACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGCTATATCC-GGTTAAATTCCGAAGGTA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATATCCGGGTT-AAGTCCGAAGGTA
36090566 CGTGATTTGG
Statistics
Matches: 117, Mismatches: 17, Indels: 13
0.80 0.12 0.09
Matches are distributed among these distances:
78 1 0.01
79 70 0.60
80 46 0.39
ACGTcount: A:0.26, C:0.21, G:0.26, T:0.26
Consensus pattern (79 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGTTAAGTCCGAAGGTATTTG
TGCGAGATACTATA
Found at i:36090537 original size:40 final size:40
Alignment explanation
Indices: 36090346--36090530 Score: 216
Period size: 40 Copynumber: 4.7 Consensus size: 40
36090336 TTGAATGATG
* * * *
36090346 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* * * *
36090386 TCCGGACTAAGAT-CCGAAGGTATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
36090426 TCCGGGCTAAG-CCCAAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
36090465 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
36090506 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
36090531 AACGAGTAGC
Statistics
Matches: 123, Mismatches: 17, Indels: 10
0.82 0.11 0.07
Matches are distributed among these distances:
39 33 0.27
40 80 0.65
41 10 0.08
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:36091429 original size:13 final size:13
Alignment explanation
Indices: 36091411--36091435 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
36091401 TATTTTAATA
36091411 TTATTTTGTGTGT
1 TTATTTTGTGTGT
36091424 TTATTTTGTGTG
1 TTATTTTGTGTG
36091436 CATTCGATGG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.08, C:0.00, G:0.24, T:0.68
Consensus pattern (13 bp):
TTATTTTGTGTGT
Found at i:36091706 original size:40 final size:40
Alignment explanation
Indices: 36091662--36091786 Score: 125
Period size: 39 Copynumber: 3.1 Consensus size: 40
36091652 TATATAAAAG
36091662 TAAAATAACAATGATATAATATATTGAAAATAATAAAACT
1 TAAAATAACAATGATATAATATATTGAAAATAATAAAACT
* * * * *
36091702 TAAAAATAAAAAAAAGCCT-TATATATATT---AATTATAAAA-G
1 T-AAAAT--AACAATG-ATATA-ATATATTGAAAATAATAAAACT
36091742 TAAAATAACAATGATATAATATATTGAAAATAATAAAACT
1 TAAAATAACAATGATATAATATATTGAAAATAATAAAACT
36091782 TAAAA
1 TAAAA
36091787 ATAAAAAAAA
Statistics
Matches: 65, Mismatches: 10, Indels: 20
0.68 0.11 0.21
Matches are distributed among these distances:
36 8 0.12
37 7 0.11
39 14 0.22
40 7 0.11
41 14 0.22
43 7 0.11
44 8 0.12
ACGTcount: A:0.61, C:0.05, G:0.05, T:0.30
Consensus pattern (40 bp):
TAAAATAACAATGATATAATATATTGAAAATAATAAAACT
Found at i:36091765 original size:80 final size:82
Alignment explanation
Indices: 36091638--36091796 Score: 304
Period size: 80 Copynumber: 2.0 Consensus size: 82
36091628 ATTATATATA
36091638 TTATATATATTAATTATATAAAAGTAAAATAACAATGATATAATATATTGAAAATAATAAAACTT
1 TTATATATATTAATTATATAAAAGTAAAATAACAATGATATAATATATTGAAAATAATAAAACTT
36091703 AAAAATAAAAAAAAGCC
66 AAAAATAAAAAAAAGCC
36091720 TTATATATATTAA-T-TATAAAAGTAAAATAACAATGATATAATATATTGAAAATAATAAAACTT
1 TTATATATATTAATTATATAAAAGTAAAATAACAATGATATAATATATTGAAAATAATAAAACTT
36091783 AAAAATAAAAAAAA
66 AAAAATAAAAAAAA
36091797 AGCCATGCAT
Statistics
Matches: 77, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
80 63 0.82
81 1 0.01
82 13 0.17
ACGTcount: A:0.61, C:0.04, G:0.04, T:0.31
Consensus pattern (82 bp):
TTATATATATTAATTATATAAAAGTAAAATAACAATGATATAATATATTGAAAATAATAAAACTT
AAAAATAAAAAAAAGCC
Found at i:36093120 original size:41 final size:42
Alignment explanation
Indices: 36093057--36093168 Score: 167
Period size: 41 Copynumber: 2.7 Consensus size: 42
36093047 ATCGTTAGTG
* *
36093057 ACATAATTCAGACTTTACGTCTAGCAGGCTTAATGCCGGTGA-
1 ACAT-ATTCAGACTATAAGTCTAGCAGGCTTAATGCCGGTGAC
36093099 A-ATTATTCAGACTATAAGTCTAGCAGGCTTAATGCCGGTGAC
1 ACA-TATTCAGACTATAAGTCTAGCAGGCTTAATGCCGGTGAC
36093141 ACAT-TTCAGACTATAAGTCTAGCAGGCT
1 ACATATTCAGACTATAAGTCTAGCAGGCT
36093169 AAGAGCCGGT
Statistics
Matches: 65, Mismatches: 2, Indels: 7
0.88 0.03 0.09
Matches are distributed among these distances:
41 60 0.92
42 4 0.06
43 1 0.02
ACGTcount: A:0.30, C:0.21, G:0.21, T:0.29
Consensus pattern (42 bp):
ACATATTCAGACTATAAGTCTAGCAGGCTTAATGCCGGTGAC
Found at i:36093439 original size:33 final size:32
Alignment explanation
Indices: 36093383--36093446 Score: 101
Period size: 33 Copynumber: 2.0 Consensus size: 32
36093373 ATAGATATGT
36093383 ATATATATATATGTTGCATTCGGCATAGGTGG
1 ATATATATATATGTTGCATTCGGCATAGGTGG
* *
36093415 ATATATTTATGTGTATGCATTCGGCATAGGTG
1 ATATATATATATGT-TGCATTCGGCATAGGTG
36093447 AAAATAAGTG
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 12 0.41
33 17 0.59
ACGTcount: A:0.27, C:0.09, G:0.25, T:0.39
Consensus pattern (32 bp):
ATATATATATATGTTGCATTCGGCATAGGTGG
Found at i:36093463 original size:33 final size:33
Alignment explanation
Indices: 36093390--36093463 Score: 87
Period size: 33 Copynumber: 2.3 Consensus size: 33
36093380 TGTATATATA
* * **
36093390 TATATGT-TGCATTCGGCATAGGTGGATATATT
1 TATATGTATGCATTCGGCATAGGTGAAAATAAG
*
36093422 TATGTGTATGCATTCGGCATAGGTGAAAATAAG
1 TATATGTATGCATTCGGCATAGGTGAAAATAAG
*
36093455 TGTATGTAT
1 TATATGTAT
36093464 CTATGCATTC
Statistics
Matches: 34, Mismatches: 7, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
32 6 0.18
33 28 0.82
ACGTcount: A:0.28, C:0.08, G:0.26, T:0.38
Consensus pattern (33 bp):
TATATGTATGCATTCGGCATAGGTGAAAATAAG
Found at i:36102170 original size:94 final size:94
Alignment explanation
Indices: 36102055--36102268 Score: 234
Period size: 94 Copynumber: 2.3 Consensus size: 94
36102045 AAGCTGAAGC
* * ** *
36102055 CATGTCCTAGACAGGTTTTACACTAGATTGTATATCGCGAGGCCGATGCATGTCCCAAACATGTC
1 CATGTCCTAGACATGTCTTACACTAGATTAAATATCGCGAGGCCGATACATGTCCCAAACATGTC
*
36102120 TTACACTAGCCCTCGT-CTCAAT-GCCGATG
66 TTACACTAGCCCTCATGCT--ATGGCCGATG
* * ** * *
36102149 CATGTCCTAGACATGTCTTACACTGGCTTAAATATTTCGAGGTCGATACATGTCCCAGACATGTC
1 CATGTCCTAGACATGTCTTACACTAGATTAAATATCGCGAGGCCGATACATGTCCCAAACATGTC
* * * *
36102214 TTACACTGGCTCTCATGCTGTGGCTGATG
66 TTACACTAGCCCTCATGCTATGGCCGATG
* *
36102243 CATGTCCCAGATATGTCTTACACTAG
1 CATGTCCTAGACATGTCTTACACTAG
36102269 CACATATATC
Statistics
Matches: 99, Mismatches: 19, Indels: 4
0.81 0.16 0.03
Matches are distributed among these distances:
93 1 0.01
94 96 0.97
95 2 0.02
ACGTcount: A:0.24, C:0.26, G:0.20, T:0.30
Consensus pattern (94 bp):
CATGTCCTAGACATGTCTTACACTAGATTAAATATCGCGAGGCCGATACATGTCCCAAACATGTC
TTACACTAGCCCTCATGCTATGGCCGATG
Found at i:36107904 original size:46 final size:45
Alignment explanation
Indices: 36107799--36108016 Score: 185
Period size: 46 Copynumber: 4.7 Consensus size: 45
36107789 TATTTGTGCT
* * ** *
36107799 GATGACATGTCCCAGACATAGTCTTACACTAAC-ACATCTCGTA-GTC
1 GATG-CATGTCCCAGACAT-GTCTTACACTAGCTACGTCT-AAAGGCC
*
36107845 GATGCATGTCCCAGACATGTCTTACACTAGCTTACGTCTGAAGGCC
1 GATGCATGTCCCAGACATGTCTTACACTAGC-TACGTCTAAAGGCC
* * *
36107891 GATGCATATCCCAGACATGTCTTACACTAG-TACTCGTCTCAATGCC
1 GATGCATGTCCCAGACATGTCTTACACTAGCTA--CGTCTAAAGGCC
* * * *
36107937 AACGCCATGTCCCAGACATGGTCTTACACTGGCT-C-TCATAATATGGTC
1 GATG-CATGTCCCAGACAT-GTCTTACACTAGCTACGTC-TAA-A-GGCC
36107985 GATGCATGTCCCAGACATGTCTTACACTAGCT
1 GATGCATGTCCCAGACATGTCTTACACTAGCT
36108017 CACACAAGTG
Statistics
Matches: 144, Mismatches: 17, Indels: 22
0.79 0.09 0.12
Matches are distributed among these distances:
44 14 0.10
45 18 0.12
46 68 0.47
47 28 0.19
48 15 0.10
49 1 0.01
ACGTcount: A:0.26, C:0.29, G:0.18, T:0.27
Consensus pattern (45 bp):
GATGCATGTCCCAGACATGTCTTACACTAGCTACGTCTAAAGGCC
Found at i:36113570 original size:20 final size:20
Alignment explanation
Indices: 36113545--36113606 Score: 64
Period size: 20 Copynumber: 3.4 Consensus size: 20
36113535 CGATTGAGAG
36113545 GTGTTGTGACCAACTCCCAT
1 GTGTTGTGACCAACTCCCAT
*
36113565 GTGTTGTTGACTAA-----A-
1 GTGTTG-TGACCAACTCCCAT
36113580 GTGTTGTGACCAACTCCCAT
1 GTGTTGTGACCAACTCCCAT
36113600 GTGTTGT
1 GTGTTGT
36113607 TGACTAAAGT
Statistics
Matches: 33, Mismatches: 2, Indels: 14
0.67 0.04 0.29
Matches are distributed among these distances:
14 6 0.18
15 6 0.18
16 1 0.03
19 1 0.03
20 13 0.39
21 6 0.18
ACGTcount: A:0.19, C:0.21, G:0.24, T:0.35
Consensus pattern (20 bp):
GTGTTGTGACCAACTCCCAT
Found at i:36113591 original size:35 final size:35
Alignment explanation
Indices: 36113545--36113616 Score: 144
Period size: 35 Copynumber: 2.1 Consensus size: 35
36113535 CGATTGAGAG
36113545 GTGTTGTGACCAACTCCCATGTGTTGTTGACTAAA
1 GTGTTGTGACCAACTCCCATGTGTTGTTGACTAAA
36113580 GTGTTGTGACCAACTCCCATGTGTTGTTGACTAAA
1 GTGTTGTGACCAACTCCCATGTGTTGTTGACTAAA
36113615 GT
1 GT
36113617 TGACAACTTA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 37 1.00
ACGTcount: A:0.22, C:0.19, G:0.24, T:0.35
Consensus pattern (35 bp):
GTGTTGTGACCAACTCCCATGTGTTGTTGACTAAA
Found at i:36115497 original size:30 final size:30
Alignment explanation
Indices: 36115463--36115532 Score: 106
Period size: 30 Copynumber: 2.3 Consensus size: 30
36115453 ACCCAGACTA
* *
36115463 ATAACACCCAGTTGAAGAAGGTCCAAACTG
1 ATAACACCCAATTGAAGAAGGTCAAAACTG
36115493 ATAACACCCAATTGAAGAAGGTCAAAACTG
1 ATAACACCCAATTGAAGAAGGTCAAAACTG
36115523 ATCAA-ACCCA
1 AT-AACACCCA
36115533 TATGAACTTG
Statistics
Matches: 37, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
30 35 0.95
31 2 0.05
ACGTcount: A:0.44, C:0.24, G:0.16, T:0.16
Consensus pattern (30 bp):
ATAACACCCAATTGAAGAAGGTCAAAACTG
Found at i:36126412 original size:15 final size:16
Alignment explanation
Indices: 36126392--36126427 Score: 56
Period size: 15 Copynumber: 2.3 Consensus size: 16
36126382 CTACACAAAA
36126392 TAAAACCCTAAACC-T
1 TAAAACCCTAAACCTT
*
36126407 TAAAACTCTAAACCTT
1 TAAAACCCTAAACCTT
36126423 TAAAA
1 TAAAA
36126428 AAGTTCAAGG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 13 0.68
16 6 0.32
ACGTcount: A:0.50, C:0.25, G:0.00, T:0.25
Consensus pattern (16 bp):
TAAAACCCTAAACCTT
Found at i:36128305 original size:45 final size:45
Alignment explanation
Indices: 36128247--36128338 Score: 184
Period size: 45 Copynumber: 2.0 Consensus size: 45
36128237 TATTTTATAG
36128247 TTAAATTGTTATTGGATTTTGTATTCCTAATCTGTGATATATTTC
1 TTAAATTGTTATTGGATTTTGTATTCCTAATCTGTGATATATTTC
36128292 TTAAATTGTTATTGGATTTTGTATTCCTAATCTGTGATATATTTC
1 TTAAATTGTTATTGGATTTTGTATTCCTAATCTGTGATATATTTC
36128337 TT
1 TT
36128339 TCAAATATGT
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
45 47 1.00
ACGTcount: A:0.24, C:0.09, G:0.13, T:0.54
Consensus pattern (45 bp):
TTAAATTGTTATTGGATTTTGTATTCCTAATCTGTGATATATTTC
Found at i:36132876 original size:21 final size:23
Alignment explanation
Indices: 36132850--36132909 Score: 88
Period size: 24 Copynumber: 2.7 Consensus size: 23
36132840 CAATCAAAGA
*
36132850 AATCCAAAAT-TT-TTATTATAT
1 AATCCAAAATCTTAATATTATAT
36132871 AATCCAAAATCTTAAATATTATAT
1 AATCCAAAATCTT-AATATTATAT
36132895 AATCCAAAATCTTAA
1 AATCCAAAATCTTAA
36132910 ATGTTATTAT
Statistics
Matches: 35, Mismatches: 1, Indels: 4
0.88 0.03 0.10
Matches are distributed among these distances:
21 10 0.29
22 2 0.06
23 2 0.06
24 21 0.60
ACGTcount: A:0.48, C:0.13, G:0.00, T:0.38
Consensus pattern (23 bp):
AATCCAAAATCTTAATATTATAT
Found at i:36132895 original size:24 final size:24
Alignment explanation
Indices: 36132863--36132916 Score: 99
Period size: 24 Copynumber: 2.2 Consensus size: 24
36132853 CCAAAATTTT
36132863 TATTATATAATCCAAAATCTTAAA
1 TATTATATAATCCAAAATCTTAAA
36132887 TATTATATAATCCAAAATCTTAAA
1 TATTATATAATCCAAAATCTTAAA
*
36132911 TGTTAT
1 TATTAT
36132917 TATATCAAAA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 29 1.00
ACGTcount: A:0.46, C:0.11, G:0.02, T:0.41
Consensus pattern (24 bp):
TATTATATAATCCAAAATCTTAAA
Found at i:36132927 original size:24 final size:24
Alignment explanation
Indices: 36132863--36132928 Score: 89
Period size: 24 Copynumber: 2.8 Consensus size: 24
36132853 CCAAAATTTT
*
36132863 TATTATATAATCCAAAATCTTAAA
1 TATTATATAATCAAAAATCTTAAA
*
36132887 TATTATATAATCCAAAATCTTAAA
1 TATTATATAATCAAAAATCTTAAA
*
36132911 TGTTAT-TATATCAAAAAT
1 TATTATATA-ATCAAAAAT
36132929 TTCTCTTAAA
Statistics
Matches: 39, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
23 2 0.05
24 37 0.95
ACGTcount: A:0.48, C:0.11, G:0.02, T:0.39
Consensus pattern (24 bp):
TATTATATAATCAAAAATCTTAAA
Found at i:36135025 original size:49 final size:49
Alignment explanation
Indices: 36134953--36135051 Score: 198
Period size: 49 Copynumber: 2.0 Consensus size: 49
36134943 AATACTAAAC
36134953 ATGCTAAGAGGACTCACAGCTTCTTATTAATAGGTTAAAAATCCCTTCA
1 ATGCTAAGAGGACTCACAGCTTCTTATTAATAGGTTAAAAATCCCTTCA
36135002 ATGCTAAGAGGACTCACAGCTTCTTATTAATAGGTTAAAAATCCCTTCA
1 ATGCTAAGAGGACTCACAGCTTCTTATTAATAGGTTAAAAATCCCTTCA
36135051 A
1 A
36135052 CAACCATGTT
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
49 50 1.00
ACGTcount: A:0.35, C:0.20, G:0.14, T:0.30
Consensus pattern (49 bp):
ATGCTAAGAGGACTCACAGCTTCTTATTAATAGGTTAAAAATCCCTTCA
Found at i:36135381 original size:15 final size:15
Alignment explanation
Indices: 36135357--36135392 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
36135347 ATACAATATA
* *
36135357 TAAATGTTAAAATTT
1 TAAATTTTAAAACTT
36135372 TAAATTTTAAAACTT
1 TAAATTTTAAAACTT
36135387 TAAATT
1 TAAATT
36135393 ATTATTATGT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.47, C:0.03, G:0.03, T:0.47
Consensus pattern (15 bp):
TAAATTTTAAAACTT
Found at i:36137127 original size:55 final size:55
Alignment explanation
Indices: 36137067--36137180 Score: 196
Period size: 55 Copynumber: 2.1 Consensus size: 55
36137057 ATCTATTTTG
36137067 TTTTACTCTTTT-GCGGGGGGGGGGGG-GTTGATACTTTGATTAGCAGTCAAAGATA
1 TTTTACT-TTTTCG-GGGGGGGGGGGGAGTTGATACTTTGATTAGCAGTCAAAGATA
36137122 TTTTACTTTTTCGGGGGGGGGGGGGAGTTGATACTTTGATTAGCAGTCAAAGATA
1 TTTTACTTTTTCGGGGGGGGGGGGGAGTTGATACTTTGATTAGCAGTCAAAGATA
36137177 TTTT
1 TTTT
36137181 CATGCTTTGT
Statistics
Matches: 57, Mismatches: 0, Indels: 4
0.93 0.00 0.07
Matches are distributed among these distances:
54 16 0.28
55 41 0.72
ACGTcount: A:0.20, C:0.10, G:0.33, T:0.37
Consensus pattern (55 bp):
TTTTACTTTTTCGGGGGGGGGGGGGAGTTGATACTTTGATTAGCAGTCAAAGATA
Found at i:36145594 original size:41 final size:41
Alignment explanation
Indices: 36145549--36145658 Score: 123
Period size: 41 Copynumber: 2.7 Consensus size: 41
36145539 TGTCAAGTCT
*
36145549 TGAGCCTAGCAGGCTTCATGCCAGTGCATTAAATCAGGCCA
1 TGAGCCTAGCAGGCTTCATGCCAGTGAATTAAATCAGGCCA
* * * * * *
36145590 TGAGCTTAGCAAGCTTCGA-GCCGGTGAATTGAATCAGGTCT
1 TGAGCCTAGCAGGCTTC-ATGCCAGTGAATTAAATCAGGCCA
* *
36145631 TGAGCCTAGAAGGCTTCATGCCGGTGAA
1 TGAGCCTAGCAGGCTTCATGCCAGTGAA
36145659 CTATATCAAG
Statistics
Matches: 57, Mismatches: 10, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
40 1 0.02
41 55 0.96
42 1 0.02
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.24
Consensus pattern (41 bp):
TGAGCCTAGCAGGCTTCATGCCAGTGAATTAAATCAGGCCA
Found at i:36157037 original size:15 final size:16
Alignment explanation
Indices: 36157011--36157041 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
36157001 CCCCTAGACT
36157011 TTTCCACTTTTCAAGC
1 TTTCCACTTTTCAAGC
36157027 TTTCC-CTTTTCAAGC
1 TTTCCACTTTTCAAGC
36157042 ACTAAGCTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 10 0.67
16 5 0.33
ACGTcount: A:0.16, C:0.32, G:0.06, T:0.45
Consensus pattern (16 bp):
TTTCCACTTTTCAAGC
Found at i:36162408 original size:48 final size:48
Alignment explanation
Indices: 36162337--36162429 Score: 177
Period size: 48 Copynumber: 1.9 Consensus size: 48
36162327 AAGACATTTG
36162337 GTTGATATGTGTGCTAGTGTAAGACTATGTCTGGGACATGGCATCAGC
1 GTTGATATGTGTGCTAGTGTAAGACTATGTCTGGGACATGGCATCAGC
*
36162385 GTTGATATGTGTGCTAGTGTAAGACTATGTTTGGGACATGGCATC
1 GTTGATATGTGTGCTAGTGTAAGACTATGTCTGGGACATGGCATC
36162430 GGCCATATTA
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
48 44 1.00
ACGTcount: A:0.23, C:0.13, G:0.31, T:0.33
Consensus pattern (48 bp):
GTTGATATGTGTGCTAGTGTAAGACTATGTCTGGGACATGGCATCAGC
Found at i:36169775 original size:36 final size:36
Alignment explanation
Indices: 36169730--36169800 Score: 133
Period size: 36 Copynumber: 2.0 Consensus size: 36
36169720 AAATTTCTAA
*
36169730 TTTTCAGCATTTACATCCATGACCCATTTTTCATAT
1 TTTTCAGCATATACATCCATGACCCATTTTTCATAT
36169766 TTTTCAGCATATACATCCATGACCCATTTTTCATA
1 TTTTCAGCATATACATCCATGACCCATTTTTCATA
36169801 CTTTGACAAC
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 34 1.00
ACGTcount: A:0.27, C:0.25, G:0.06, T:0.42
Consensus pattern (36 bp):
TTTTCAGCATATACATCCATGACCCATTTTTCATAT
Found at i:36176105 original size:23 final size:24
Alignment explanation
Indices: 36176054--36176157 Score: 95
Period size: 24 Copynumber: 4.2 Consensus size: 24
36176044 TTTCTGATAT
*
36176054 TTTGTTTCTCCTACTTTTCGATTCC
1 TTTGTTTCT-TTACTTTTCGATTCC
*
36176079 TTTGTTTCTTTACTTTTC-CTTCC
1 TTTGTTTCTTTACTTTTCGATTCC
* * * *
36176102 TTTGTTCTCCCCTCATCCTTTC-CTTCC
1 TTTGTT-T--CTTTA-CTTTTCGATTCC
36176129 TTTGTTTCTTTACTTTTCGATTCC
1 TTTGTTTCTTTACTTTTCGATTCC
36176153 TTTGT
1 TTTGT
36176158 GCATTGTGGA
Statistics
Matches: 65, Mismatches: 9, Indels: 11
0.76 0.11 0.13
Matches are distributed among these distances:
23 15 0.23
24 21 0.32
25 9 0.14
26 4 0.06
27 16 0.25
ACGTcount: A:0.06, C:0.29, G:0.07, T:0.59
Consensus pattern (24 bp):
TTTGTTTCTTTACTTTTCGATTCC
Done.