Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D06
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: 68668488
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1920000 characters in sequence are not A, C, G, or T
File 21 of 230
Found at i:5821919 original size:14 final size:14
Alignment explanation
Indices: 5821896--5821930 Score: 61
Period size: 14 Copynumber: 2.5 Consensus size: 14
5821886 GTTGATTTTT
5821896 TTGAAAAACAGAAA
1 TTGAAAAACAGAAA
*
5821910 TTGAAGAACAGAAA
1 TTGAAAAACAGAAA
5821924 TTGAAAA
1 TTGAAAA
5821931 GACCTCAGCA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.60, C:0.06, G:0.17, T:0.17
Consensus pattern (14 bp):
TTGAAAAACAGAAA
Found at i:5821927 original size:89 final size:88
Alignment explanation
Indices: 5821827--5822003 Score: 257
Period size: 89 Copynumber: 2.0 Consensus size: 88
5821817 ATTTTTGACA
** * *
5821827 AACAGAAATTGAAATTACCTCAGC-GTGTCCCGAGGCTCAACTCACCTTTCGCAATATGAGTTGA
1 AACAGAAATTGAAAAGACCTCAGCAGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTT-A
*
5821891 TTTTTTTGAAAAACAGAAATTGAAG
65 -ATTTTTGAAAAACAGAAATTGAAG
*
5821916 AACAGAAATTGAAAAGACCTCAGCATGTGAGCCGAGGCTCAACTCACCTCTCGCAATATGAGTTA
1 AACAGAAATTGAAAAGACCTCAGCA-GTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTA
*
5821981 ATTTTTGACAAACAGAAATTGAA
65 ATTTTTGAAAAACAGAAATTGAA
5822004 ATTACCTCAG
Statistics
Matches: 79, Mismatches: 7, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
89 43 0.54
90 1 0.01
91 35 0.44
ACGTcount: A:0.37, C:0.20, G:0.18, T:0.25
Consensus pattern (88 bp):
AACAGAAATTGAAAAGACCTCAGCAGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTAA
TTTTTGAAAAACAGAAATTGAAG
Found at i:5821936 original size:164 final size:161
Alignment explanation
Indices: 5821735--5822386 Score: 847
Period size: 164 Copynumber: 4.1 Consensus size: 161
5821725 TATAAATTGA
** * * *
5821735 AAAAACAGAAATTGAAAAGTAGAAATTAAAAAGACCTCAGCATGTGAGCCGAGACTCAACTCACC
1 AAAAACAGAAATT-AAAACCAGAAATTGAAAAGACCTCAGCATGTGAGCCAAGGCTCAACTCACC
5821800 TCTCGCAATATGAGTTAATTTTTGACAAACAGAAATTGAAATTACCTCAGCGTGTCCCGAGGCTC
65 TCTCGCAATATGAGTTAATTTTTGACAAACAGAAATTGAAATTACCTCAGCGTGTCCCGAGGCTC
*
5821865 AACTCACCTTTCGCAATATGAGTTGATTTTTTTG
130 AACTCACCTCTCGCAATATGAGTTGA--TTTTTG
*
5821899 AAAAACAGAAATTGAAGAA-CAGAAATTGAAAAGACCTCAGCATGTGAGCCGAGGCTCAACTCAC
1 AAAAACAGAAATT-AA-AACCAGAAATTGAAAAGACCTCAGCATGTGAGCCAAGGCTCAACTCAC
5821963 CTCTCGCAATATGAGTTAATTTTTGACAAACAGAAATTGAAATTACCTCAGCGTGTCCCGAGGCT
64 CTCTCGCAATATGAGTTAATTTTTGACAAACAGAAATTGAAATTACCTCAGCGTGTCCCGAGGCT
5822028 CAACTCACCTCTCGCAATATGAGTTGATTTTTG
129 CAACTCACCTCTCGCAATATGAGTTGATTTTTG
* * *
5822061 ACAAACAGAAATT-------GAAATT------ACCTCAGC--GTG-TCTTAAGGCTCAACTCACC
1 AAAAACAGAAATTAAAACCAGAAATTGAAAAGACCTCAGCATGTGAGC-CAAGGCTCAACTCACC
* * *
5822110 TCTCGCAATATGAGTTGATTTTTGACAAACAGAAATTGAAATTACCTCAGCGTGTTCTGAGGCTC
65 TCTCGCAATATGAGTTAATTTTTGACAAACAGAAATTGAAATTACCTCAGCGTGTCCCGAGGCTC
5822175 AACTCACCTCTCGCAATATGAGTTGA-TTTT-
130 AACTCACCTCTCGCAATATGAGTTGATTTTTG
* **
5822205 AAAAACAGAAATTAAAAACCAGAAATTGAAAATACCTCAGTGTGTGAGCCAAGGCTCAACTCACC
1 AAAAACAGAAATT-AAAACCAGAAATTGAAAAGACCTCAGCATGTGAGCCAAGGCTCAACTCACC
* * ** * * ** *
5822270 TCTTGCAATATGAGATAATTTTTGATGAACATAAATTAAAACCACCTCAGCGTGTCCTGAGGCTC
65 TCTCGCAATATGAGTTAATTTTTGACAAACAGAAATTGAAATTACCTCAGCGTGTCCCGAGGCTC
5822335 AACTCACCTCTCGCAATATGAGTTGACTTTTTTG
130 AACTCACCTCTCGCAATATGAGTTGA--TTTTTG
* *
5822369 AAAATCAGAAATAAAAAC
1 AAAAACAGAAATTAAAAC
5822387 ATCAAAATAC
Statistics
Matches: 438, Mismatches: 27, Indels: 47
0.86 0.05 0.09
Matches are distributed among these distances:
144 12 0.03
145 5 0.01
146 105 0.24
148 8 0.02
152 6 0.01
154 6 0.01
158 7 0.02
160 99 0.23
161 1 0.00
162 18 0.04
163 9 0.02
164 160 0.37
165 2 0.00
ACGTcount: A:0.36, C:0.21, G:0.17, T:0.27
Consensus pattern (161 bp):
AAAAACAGAAATTAAAACCAGAAATTGAAAAGACCTCAGCATGTGAGCCAAGGCTCAACTCACCT
CTCGCAATATGAGTTAATTTTTGACAAACAGAAATTGAAATTACCTCAGCGTGTCCCGAGGCTCA
ACTCACCTCTCGCAATATGAGTTGATTTTTG
Found at i:5822041 original size:73 final size:73
Alignment explanation
Indices: 5821916--5822217 Score: 473
Period size: 73 Copynumber: 4.1 Consensus size: 73
5821906 GAAATTGAAG
** ** *
5821916 AACAGAAATTGAAAAGACCTCAGCATGTGAGCCGAGGCTCAACTCACCTCTCGCAATATGAGTTA
1 AACAGAAATTGAAATTACCTCAGC--GTGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTG
5821981 ATTTTTGACA
64 ATTTTTGACA
5821991 AACAGAAATTGAAATTACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGAT
1 AACAGAAATTGAAATTACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGAT
5822056 TTTTGACA
66 TTTTGACA
***
5822064 AACAGAAATTGAAATTACCTCAGCGTGTCTTAAGGCTCAACTCACCTCTCGCAATATGAGTTGAT
1 AACAGAAATTGAAATTACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGAT
5822129 TTTTGACA
66 TTTTGACA
* *
5822137 AACAGAAATTGAAATTACCTCAGCGTGTTCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-
1 AACAGAAATTGAAATTACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGAT
*
5822201 TTTT-AAA
66 TTTTGACA
5822208 AACAGAAATT
1 AACAGAAATT
5822218 AAAAACCAGA
Statistics
Matches: 215, Mismatches: 12, Indels: 4
0.93 0.05 0.02
Matches are distributed among these distances:
71 12 0.06
72 4 0.02
73 177 0.82
75 22 0.10
ACGTcount: A:0.33, C:0.22, G:0.17, T:0.27
Consensus pattern (73 bp):
AACAGAAATTGAAATTACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGAT
TTTTGACA
Found at i:5822182 original size:146 final size:146
Alignment explanation
Indices: 5821910--5822380 Score: 561
Period size: 146 Copynumber: 3.1 Consensus size: 146
5821900 AAAACAGAAA
* * *
5821910 TTGAAGAA-CAGAAATTGAAAAGACCTCAGCATGTGAGCCGAGGCTCAACTCACCTCTCGCAATA
1 TTGAA-AACCAGAAATTGAAAATACCTCAGC--GTGTGCCAAGGCTCAACTCACCTCTCGCAATA
*
5821974 TGAGTTAATTTTTGACAAACAGAAATTGAAATTACCTCAGCGTGTCCCGAGGCTCAACTCACCTC
63 TGAGTTAATTTTTGACAAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTC
5822039 TCGCAATATGAGTTGATTT
128 TCGCAATATGAGTTGATTT
* *
5822058 TTGACAAA-CAGAAATTGAAATTACCTCAGCGTGT-CTTAAGGCTCAACTCACCTCTCGCAATAT
1 TTGA-AAACCAGAAATTGAAAATACCTCAGCGTGTGC-CAAGGCTCAACTCACCTCTCGCAATAT
* *
5822121 GAGTTGATTTTTGACAAACAGAAATTGAAATTACCTCAGCGTGTTCTGAGGCTCAACTCACCTCT
64 GAGTTAATTTTTGACAAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCT
5822186 CGCAATATGAGTTGATTTT
129 CGCAATATGAGTTGA-TTT
* *
5822205 AAAAACAGAAATTAAAAACCAGAAATTGAAAATACCTCAGTGTGTGAGCCAAGGCTCAACTCACC
1 -----------TTGAAAACCAGAAATTGAAAATACCTCAGCGTGT--GCCAAGGCTCAACTCACC
* * ** * * **
5822270 TCTTGCAATATGAGATAATTTTTGATGAACATAAATTAAAACCACCTCAGCGTGTCCTGAGGCTC
53 TCTCGCAATATGAGTTAATTTTTGACAAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTC
5822335 AACTCACCTCTCGCAATATGAGTTGACTTTT
118 AACTCACCTCTCGCAATATGAGTTGA--TTT
*
5822366 TTGAAAATCAGAAAT
1 TTGAAAACCAGAAAT
5822381 AAAAACATCA
Statistics
Matches: 280, Mismatches: 24, Indels: 36
0.82 0.07 0.11
Matches are distributed among these distances:
145 1 0.00
146 105 0.38
147 3 0.01
148 26 0.09
149 1 0.00
150 13 0.05
157 3 0.01
158 27 0.10
160 96 0.34
161 5 0.02
ACGTcount: A:0.34, C:0.22, G:0.17, T:0.27
Consensus pattern (146 bp):
TTGAAAACCAGAAATTGAAAATACCTCAGCGTGTGCCAAGGCTCAACTCACCTCTCGCAATATGA
GTTAATTTTTGACAAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCG
CAATATGAGTTGATTT
Found at i:5822221 original size:13 final size:14
Alignment explanation
Indices: 5822203--5822236 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
5822193 TGAGTTGATT
5822203 TTAAAAA-CAGAAA
1 TTAAAAACCAGAAA
5822216 TTAAAAACCAGAAA
1 TTAAAAACCAGAAA
*
5822230 TTGAAAA
1 TTAAAAA
5822237 TACCTCAGTG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 7 0.37
14 12 0.63
ACGTcount: A:0.65, C:0.09, G:0.09, T:0.18
Consensus pattern (14 bp):
TTAAAAACCAGAAA
Found at i:5822346 original size:306 final size:309
Alignment explanation
Indices: 5821789--5822380 Score: 942
Period size: 306 Copynumber: 1.9 Consensus size: 309
5821779 TGAGCCGAGA
5821789 CTCAACTCACCTCTCGCAATATGAGTTAATTTTTGACAAACAGAAATTGAAATTACCTCAGCGTG
1 CTCAACTCACCTCTCGCAATATGAGTTAATTTTTGACAAACAGAAATTGAAATTACCTCAGCGTG
* *
5821854 TCCCGAGGCTCAACTCACCTTTCGCAATATGAGTTGATTTTTTTGAAAAACAGAAATTGAAGAAC
66 TCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA--TTTTTGAAAAACAGAAATTGAAAAAC
* *
5821919 AGAAATTGAAAAGACCTCAGCATGTGAGCCGAGGCTCAACTCACCTCTCGCAATATGAGTTAATT
129 AGAAATTGAAAAGACCTCAGCATGTGAGCCAAGGCTCAACTCACCTCTCGCAATATGAGATAATT
* **
5821984 TTTGACAAACAGAAATTGAAATTACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATG
194 TTTGACAAACAGAAATTAAAACCACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATG
5822049 AGTTGA-TTTTTGACAAA-CAGAAATTGAAATTACCTCAGCGTGTCTTAAGG
259 AGTTGACTTTTTGA-AAATCAGAAATTGAAATTACCTCAGCGTGTCTTAAGG
*
5822099 CTCAACTCACCTCTCGCAATATGAGTTGATTTTTGACAAACAGAAATTGAAATTACCTCAGCGTG
1 CTCAACTCACCTCTCGCAATATGAGTTAATTTTTGACAAACAGAAATTGAAATTACCTCAGCGTG
* *
5822164 TTCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTT-AAAAACAGAAATT-AAAAACCA
66 TCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTGAAAAA-CA
* ** *
5822226 GAAATTGAAAATACCTCAGTGTGTGAGCCAAGGCTCAACTCACCTCTTGCAATATGAGATAATTT
130 GAAATTGAAAAGACCTCAGCATGTGAGCCAAGGCTCAACTCACCTCTCGCAATATGAGATAATTT
** * *
5822291 TTGATGAACATAAATTAAAACCACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGA
195 TTGACAAACAGAAATTAAAACCACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGA
5822356 GTTGACTTTTTTGAAAATCAGAAAT
260 GTTGAC-TTTTTGAAAATCAGAAAT
5822381 AAAAACATCA
Statistics
Matches: 260, Mismatches: 18, Indels: 10
0.90 0.06 0.03
Matches are distributed among these distances:
305 4 0.02
306 137 0.53
307 7 0.03
308 14 0.05
310 98 0.38
ACGTcount: A:0.34, C:0.22, G:0.17, T:0.28
Consensus pattern (309 bp):
CTCAACTCACCTCTCGCAATATGAGTTAATTTTTGACAAACAGAAATTGAAATTACCTCAGCGTG
TCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTGAAAAACAG
AAATTGAAAAGACCTCAGCATGTGAGCCAAGGCTCAACTCACCTCTCGCAATATGAGATAATTTT
TGACAAACAGAAATTAAAACCACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGAG
TTGACTTTTTGAAAATCAGAAATTGAAATTACCTCAGCGTGTCTTAAGG
Found at i:5830627 original size:14 final size:15
Alignment explanation
Indices: 5830608--5830646 Score: 53
Period size: 14 Copynumber: 2.6 Consensus size: 15
5830598 GATGTGAATA
*
5830608 ATAAAATAT-ATAAT
1 ATAAAATATCAAAAT
5830622 ATAAAATATCAAAAT
1 ATAAAATATCAAAAT
5830637 ATCAAAATAT
1 AT-AAAATAT
5830647 TAGAATAATA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 9 0.41
15 6 0.27
16 7 0.32
ACGTcount: A:0.64, C:0.05, G:0.00, T:0.31
Consensus pattern (15 bp):
ATAAAATATCAAAAT
Found at i:5830637 original size:8 final size:7
Alignment explanation
Indices: 5830608--5830646 Score: 51
Period size: 8 Copynumber: 5.3 Consensus size: 7
5830598 GATGTGAATA
5830608 ATAAAAT
1 ATAAAAT
*
5830615 ATATAAT
1 ATAAAAT
5830622 ATAAAAT
1 ATAAAAT
5830629 ATCAAAAT
1 AT-AAAAT
5830637 ATCAAAAT
1 AT-AAAAT
5830645 AT
1 AT
5830647 TAGAATAATA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
7 14 0.48
8 15 0.52
ACGTcount: A:0.64, C:0.05, G:0.00, T:0.31
Consensus pattern (7 bp):
ATAAAAT
Found at i:5830819 original size:20 final size:21
Alignment explanation
Indices: 5830768--5830823 Score: 64
Period size: 20 Copynumber: 2.8 Consensus size: 21
5830758 ATACTACATC
5830768 AATATGTACAT-ATATAAAAA
1 AATATGTACATAATATAAAAA
* * *
5830788 AATACGT-GATAATAT-TAAA
1 AATATGTACATAATATAAAAA
5830807 AATATGTACATAATATA
1 AATATGTACATAATATA
5830824 GTGTTAAAAA
Statistics
Matches: 28, Mismatches: 5, Indels: 5
0.74 0.13 0.13
Matches are distributed among these distances:
19 11 0.39
20 17 0.61
ACGTcount: A:0.55, C:0.05, G:0.07, T:0.32
Consensus pattern (21 bp):
AATATGTACATAATATAAAAA
Found at i:5830865 original size:22 final size:24
Alignment explanation
Indices: 5830802--5830866 Score: 80
Period size: 25 Copynumber: 2.8 Consensus size: 24
5830792 CGTGATAATA
*
5830802 TTAAAAATATGTACATAATATAGTG
1 TTAAAAATATATACATAATATAG-G
*
5830827 TTAAAAATACATACATAATATA-G
1 TTAAAAATATATACATAATATAGG
*
5830850 TT-AAGATATATACATAA
1 TTAAAAATATATACATAA
5830867 GATAACATGT
Statistics
Matches: 36, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
22 13 0.36
23 3 0.08
25 20 0.56
ACGTcount: A:0.52, C:0.06, G:0.08, T:0.34
Consensus pattern (24 bp):
TTAAAAATATATACATAATATAGG
Found at i:5830895 original size:34 final size:33
Alignment explanation
Indices: 5830855--5830920 Score: 87
Period size: 34 Copynumber: 2.0 Consensus size: 33
5830845 TATAGTTAAG
*
5830855 ATATATACATAAGATAACATGTAAAAATATATAT
1 ATATATAAATAAGATAACAT-TAAAAATATATAT
* * *
5830889 ATATATAAATAATATAATATTAAAGATATATA
1 ATATATAAATAAGATAACATTAAAAATATATA
5830921 CATAAATAGT
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
33 11 0.39
34 17 0.61
ACGTcount: A:0.58, C:0.03, G:0.05, T:0.35
Consensus pattern (33 bp):
ATATATAAATAAGATAACATTAAAAATATATAT
Found at i:5830950 original size:48 final size:47
Alignment explanation
Indices: 5830882--5831017 Score: 140
Period size: 48 Copynumber: 2.9 Consensus size: 47
5830872 CATGTAAAAA
* *
5830882 TATATATATATATAAATAATATAATATTAAAGATATATACATAA-ATAG
1 TATAAATATATATATATAATATAATATT-AAGA-ATATACATAATATAG
* * *
5830930 TATAAATATATATATGTAATATAA-ATTTAA-AATATACCTAATATAT
1 TATAAATATATATATATAATATAATA-TTAAGAATATACATAATATAG
*
5830976 TA-AAAGA-ATATATATAATATAATATTAAGAAATATA-ATAATA
1 TATAAATATATATATATAATATAATATTAAG-AATATACATAATA
5831018 ACAAAAAAAA
Statistics
Matches: 75, Mismatches: 8, Indels: 13
0.78 0.08 0.14
Matches are distributed among these distances:
44 18 0.24
45 19 0.25
46 12 0.16
47 3 0.04
48 23 0.31
ACGTcount: A:0.57, C:0.02, G:0.04, T:0.38
Consensus pattern (47 bp):
TATAAATATATATATATAATATAATATTAAGAATATACATAATATAG
Found at i:5831010 original size:22 final size:21
Alignment explanation
Indices: 5830897--5831017 Score: 68
Period size: 22 Copynumber: 5.3 Consensus size: 21
5830887 ATATATATAA
*
5830897 ATAATATAATATTAAAGATAT
1 ATAATATAATATTAAAAATAT
5830918 ATACATA-AATAGTATAAATATATAT
1 ATA-ATATAATA-T-TAAA-A-ATAT
*
5830943 ATGTAATATAA-ATTTAAAATAT
1 A--TAATATAATATTAAAAATAT
* *
5830965 ACCTAATATATTA-AAAGAATATAT
1 A--TAATATAATATTAA-AA-ATAT
5830989 ATAATATAATATTAAGAAATAT
1 ATAATATAATATTAA-AAATAT
5831011 AATAATA
1 -ATAATA
5831018 ACAAAAAAAA
Statistics
Matches: 78, Mismatches: 9, Indels: 24
0.70 0.08 0.22
Matches are distributed among these distances:
21 7 0.09
22 30 0.38
23 19 0.24
24 8 0.10
25 6 0.08
26 4 0.05
27 4 0.05
ACGTcount: A:0.57, C:0.02, G:0.04, T:0.36
Consensus pattern (21 bp):
ATAATATAATATTAAAAATAT
Found at i:5831547 original size:30 final size:29
Alignment explanation
Indices: 5831511--5831713 Score: 298
Period size: 30 Copynumber: 6.8 Consensus size: 29
5831501 TAGGTACAAG
5831511 TGGTGGTGGAGAAGGTGTGGCTAGTGGAGT
1 TGGTGGTGGA-AAGGTGTGGCTAGTGGAGT
* *
5831541 TGGTGGTGGAAAAGAGTGGCTAGTGGAGT
1 TGGTGGTGGAAAGGTGTGGCTAGTGGAGT
5831570 TGGTGGTGGAAAAGGTGTGGCTAGTGGAGT
1 TGGTGGTGG-AAAGGTGTGGCTAGTGGAGT
* *
5831600 TGGTGGTGGAAAAGAGTGGCTAGTGGAGT
1 TGGTGGTGGAAAGGTGTGGCTAGTGGAGT
5831629 TGGTGGTGGAAAAGGTGTGGCTAGTGGAGT
1 TGGTGGTGG-AAAGGTGTGGCTAGTGGAGT
*
5831659 TGGTGGTGGTAAAGGTGTGCCTAGTGGAGT
1 TGGTGGTGG-AAAGGTGTGGCTAGTGGAGT
* *
5831689 TGTTGGTGGAAAAGGAGTGGCTAGT
1 TGGTGGTGG-AAAGGTGTGGCTAGT
5831714 TGAGAAAAGT
Statistics
Matches: 157, Mismatches: 14, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
29 53 0.34
30 104 0.66
ACGTcount: A:0.21, C:0.04, G:0.49, T:0.27
Consensus pattern (29 bp):
TGGTGGTGGAAAGGTGTGGCTAGTGGAGT
Found at i:5831603 original size:59 final size:59
Alignment explanation
Indices: 5831511--5831713 Score: 345
Period size: 59 Copynumber: 3.4 Consensus size: 59
5831501 TAGGTACAAG
*
5831511 TGGTGGTGGAGAAGGTGTGGCTAGTGGAGTTGGTGGTGGAAAAGAGTGGCTAGTGGAGT
1 TGGTGGTGGAAAAGGTGTGGCTAGTGGAGTTGGTGGTGGAAAAGAGTGGCTAGTGGAGT
5831570 TGGTGGTGGAAAAGGTGTGGCTAGTGGAGTTGGTGGTGGAAAAGAGTGGCTAGTGGAGT
1 TGGTGGTGGAAAAGGTGTGGCTAGTGGAGTTGGTGGTGGAAAAGAGTGGCTAGTGGAGT
*
5831629 TGGTGGTGGAAAAGGTGTGGCTAGTGGAGTTGGTGGTGGTAAAG-GTGTGCCTAGTGGAGT
1 TGGTGGTGGAAAAGGTGTGGCTAGTGGAGTTGGTGGTGGAAAAGAGTG-G-CTAGTGGAGT
* *
5831689 TGTTGGTGGAAAAGGAGTGGCTAGT
1 TGGTGGTGGAAAAGGTGTGGCTAGT
5831714 TGAGAAAAGT
Statistics
Matches: 138, Mismatches: 4, Indels: 3
0.95 0.03 0.02
Matches are distributed among these distances:
58 3 0.02
59 102 0.74
60 33 0.24
ACGTcount: A:0.21, C:0.04, G:0.49, T:0.27
Consensus pattern (59 bp):
TGGTGGTGGAAAAGGTGTGGCTAGTGGAGTTGGTGGTGGAAAAGAGTGGCTAGTGGAGT
Found at i:5831662 original size:89 final size:88
Alignment explanation
Indices: 5831511--5831713 Score: 325
Period size: 89 Copynumber: 2.3 Consensus size: 88
5831501 TAGGTACAAG
* *
5831511 TGGTGGTGGAGAAGGTGTGGCTAGTGGAGTTGGTGGTGGAAAAGAGTGGCTAGTGGAGTTGGTGG
1 TGGTGGTGGA-AAAGAGTGGCTAGTGGAGTTGGTGGTGGAAAAGAGTGGCTAGTGGAGTTGGTGG
*
5831576 TGGAAAAGGTGTGGCTAGTGGAGT
65 TGGAAAAGGTGTGCCTAGTGGAGT
*
5831600 TGGTGGTGGAAAAGAGTGGCTAGTGGAGTTGGTGGTGGAAAAGGTGTGGCTAGTGGAGTTGGTGG
1 TGGTGGTGGAAAAGAGTGGCTAGTGGAGTTGGTGGTGGAAAA-GAGTGGCTAGTGGAGTTGGTGG
*
5831665 TGGTAAAGGTGTGCCTAGTGGAGT
65 TGGAAAAGGTGTGCCTAGTGGAGT
*
5831689 TGTTGGTGGAAAAGGAGTGGCTAGT
1 TGGTGGTGGAAAA-GAGTGGCTAGT
5831714 TGAGAAAAGT
Statistics
Matches: 106, Mismatches: 6, Indels: 3
0.92 0.05 0.03
Matches are distributed among these distances:
88 30 0.28
89 65 0.61
90 11 0.10
ACGTcount: A:0.21, C:0.04, G:0.49, T:0.27
Consensus pattern (88 bp):
TGGTGGTGGAAAAGAGTGGCTAGTGGAGTTGGTGGTGGAAAAGAGTGGCTAGTGGAGTTGGTGGT
GGAAAAGGTGTGCCTAGTGGAGT
Found at i:5832137 original size:61 final size:61
Alignment explanation
Indices: 5832062--5832185 Score: 230
Period size: 61 Copynumber: 2.0 Consensus size: 61
5832052 AAATCAAAGC
*
5832062 AGGATGCTTTATCAGAAGAATTTCTGAAATCGCACCCACGTGGACGCGCTTTTGCTACAGT
1 AGGATGCTTTATCAGAAGAATTTCTGAAATCGCACCCACGTGGACGCACTTTTGCTACAGT
*
5832123 AGGATGCTTTATCAGAAGAATTTCTGAAATCGCGCCCACGTGGACGCACTTTTGCTACAGT
1 AGGATGCTTTATCAGAAGAATTTCTGAAATCGCACCCACGTGGACGCACTTTTGCTACAGT
5832184 AG
1 AG
5832186 CATGTTTGGG
Statistics
Matches: 61, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
61 61 1.00
ACGTcount: A:0.27, C:0.23, G:0.23, T:0.27
Consensus pattern (61 bp):
AGGATGCTTTATCAGAAGAATTTCTGAAATCGCACCCACGTGGACGCACTTTTGCTACAGT
Found at i:5836616 original size:22 final size:21
Alignment explanation
Indices: 5836572--5836616 Score: 54
Period size: 22 Copynumber: 2.1 Consensus size: 21
5836562 TATATTGTAG
** *
5836572 AATATAAAAATATTTATATGA
1 AATATAAAAATATACATAAGA
5836593 AATATAAAATATATACATAAGA
1 AATATAAAA-ATATACATAAGA
5836615 AA
1 AA
5836617 AATATGGATT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
21 9 0.45
22 11 0.55
ACGTcount: A:0.62, C:0.02, G:0.04, T:0.31
Consensus pattern (21 bp):
AATATAAAAATATACATAAGA
Found at i:5836718 original size:26 final size:26
Alignment explanation
Indices: 5836655--5836735 Score: 74
Period size: 26 Copynumber: 2.9 Consensus size: 26
5836645 GTATAAATAT
5836655 ATGTGTATATATATA-AGTAAAGTATGAAAA
1 ATGTGTATATATATACA-TAAA-T-T--AAA
*
5836685 TATGTGTATATATGTACATAAATTAAA
1 -ATGTGTATATATATACATAAATTAAA
* *
5836712 ATGTGTATATGTATATATAAATTA
1 ATGTGTATATATATACATAAATTA
5836736 TAAAGTAAAT
Statistics
Matches: 45, Mismatches: 4, Indels: 7
0.80 0.07 0.12
Matches are distributed among these distances:
26 21 0.47
27 3 0.07
29 1 0.02
30 1 0.02
31 18 0.40
32 1 0.02
ACGTcount: A:0.46, C:0.01, G:0.14, T:0.40
Consensus pattern (26 bp):
ATGTGTATATATATACATAAATTAAA
Found at i:5836832 original size:3 final size:3
Alignment explanation
Indices: 5836818--5836864 Score: 85
Period size: 3 Copynumber: 15.3 Consensus size: 3
5836808 GATATAAATG
5836818 AAT AAGT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AA-T AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
5836864 A
1 A
5836865 GTAGTAAAAG
Statistics
Matches: 43, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
3 40 0.93
4 3 0.07
ACGTcount: A:0.66, C:0.00, G:0.02, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:5838150 original size:19 final size:19
Alignment explanation
Indices: 5838128--5838193 Score: 86
Period size: 19 Copynumber: 3.6 Consensus size: 19
5838118 GGCTTTATAG
5838128 TATTAATTGTTAGTAAAAT
1 TATTAATTGTTAGTAAAAT
*
5838147 TATTAATTG-T--T-AATT
1 TATTAATTGTTAGTAAAAT
5838162 GTATTAATTGTTAGTAAAAT
1 -TATTAATTGTTAGTAAAAT
5838182 TATTAATTGTTA
1 TATTAATTGTTA
5838194 ATTGTATTAA
Statistics
Matches: 40, Mismatches: 2, Indels: 10
0.77 0.04 0.19
Matches are distributed among these distances:
15 3 0.08
16 10 0.25
17 1 0.03
18 1 0.03
19 22 0.55
20 3 0.08
ACGTcount: A:0.38, C:0.00, G:0.11, T:0.52
Consensus pattern (19 bp):
TATTAATTGTTAGTAAAAT
Found at i:5838166 original size:16 final size:16
Alignment explanation
Indices: 5838147--5838209 Score: 74
Period size: 16 Copynumber: 3.8 Consensus size: 16
5838137 TTAGTAAAAT
5838147 TATTAATTGTTAATTG
1 TATTAATTGTTAATTG
*
5838163 TATTAATTGTTAGTAAAAT-
1 TATTAATTG-T--T-AATTG
5838182 TATTAATTGTTAATTG
1 TATTAATTGTTAATTG
5838198 TATTAATTGTTA
1 TATTAATTGTTA
5838210 GTAAATTTTT
Statistics
Matches: 40, Mismatches: 2, Indels: 10
0.77 0.04 0.19
Matches are distributed among these distances:
15 3 0.08
16 22 0.55
17 1 0.03
18 1 0.03
19 10 0.25
20 3 0.08
ACGTcount: A:0.35, C:0.00, G:0.11, T:0.54
Consensus pattern (16 bp):
TATTAATTGTTAATTG
Found at i:5838170 original size:35 final size:35
Alignment explanation
Indices: 5838127--5838214 Score: 176
Period size: 35 Copynumber: 2.5 Consensus size: 35
5838117 AGGCTTTATA
5838127 GTATTAATTGTTAGTAAAATTATTAATTGTTAATT
1 GTATTAATTGTTAGTAAAATTATTAATTGTTAATT
5838162 GTATTAATTGTTAGTAAAATTATTAATTGTTAATT
1 GTATTAATTGTTAGTAAAATTATTAATTGTTAATT
5838197 GTATTAATTGTTAGTAAA
1 GTATTAATTGTTAGTAAA
5838215 TTTTTTAAAT
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 53 1.00
ACGTcount: A:0.38, C:0.00, G:0.12, T:0.50
Consensus pattern (35 bp):
GTATTAATTGTTAGTAAAATTATTAATTGTTAATT
Found at i:5838294 original size:22 final size:22
Alignment explanation
Indices: 5838264--5838354 Score: 121
Period size: 22 Copynumber: 4.1 Consensus size: 22
5838254 AGGGTTTTTG
*
5838264 TTAATGTT-AGGGTTTTAAGGTTT
1 TTAA-GTTAAGGG-TTTAGGGTTT
* *
5838287 TTAAGTTAAGGGCTTAGGGTAT
1 TTAAGTTAAGGGTTTAGGGTTT
*
5838309 TTAAGTTAAGGGCTTAGGGTTT
1 TTAAGTTAAGGGTTTAGGGTTT
5838331 TTAAGTTAAGGGTTTAGGGTTT
1 TTAAGTTAAGGGTTTAGGGTTT
5838353 TT
1 TT
5838355 GTTAGGGTTT
Statistics
Matches: 62, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
22 54 0.87
23 8 0.13
ACGTcount: A:0.23, C:0.02, G:0.30, T:0.45
Consensus pattern (22 bp):
TTAAGTTAAGGGTTTAGGGTTT
Found at i:5838383 original size:7 final size:7
Alignment explanation
Indices: 5838371--5838410 Score: 57
Period size: 7 Copynumber: 5.9 Consensus size: 7
5838361 GTTTGTCAAT
5838371 TAAATTA
1 TAAATTA
5838378 TAAATT-
1 TAAATTA
5838384 T-AATTA
1 TAAATTA
5838390 TAAATTA
1 TAAATTA
5838397 TAAATTTA
1 TAAA-TTA
5838405 TAAATT
1 TAAATT
5838411 TTTAATAAAT
Statistics
Matches: 30, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
5 4 0.13
6 2 0.07
7 17 0.57
8 7 0.23
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (7 bp):
TAAATTA
Found at i:5838383 original size:12 final size:12
Alignment explanation
Indices: 5838368--5838410 Score: 50
Period size: 12 Copynumber: 3.3 Consensus size: 12
5838358 AGGGTTTGTC
5838368 AATTAAATTATA
1 AATTAAATTATA
*
5838380 AATTTAATTATA
1 AATTAAATTATA
5838392 AATTATAAATTTATA
1 AA-T-TAAA-TTATA
5838407 AATT
1 AATT
5838411 TTTAATAAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
12 13 0.50
13 2 0.08
14 4 0.15
15 7 0.27
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (12 bp):
AATTAAATTATA
Found at i:5838498 original size:22 final size:21
Alignment explanation
Indices: 5838422--5838490 Score: 113
Period size: 21 Copynumber: 3.3 Consensus size: 21
5838412 TTAATAAATT
*
5838422 AGGG-TAGGGTTTTTAAGTTG
1 AGGGTTAGGGTTTTTAAGTTA
5838442 AGGGTTAGGGTTTTTAAGTTA
1 AGGGTTAGGGTTTTTAAGTTA
5838463 AGGGCTTAGGGTTTTTAAGTTA
1 AGGG-TTAGGGTTTTTAAGTTA
5838485 AGGGTT
1 AGGGTT
5838491 TAGAGTTTAG
Statistics
Matches: 46, Mismatches: 1, Indels: 3
0.92 0.02 0.06
Matches are distributed among these distances:
20 4 0.09
21 21 0.46
22 21 0.46
ACGTcount: A:0.22, C:0.01, G:0.36, T:0.41
Consensus pattern (21 bp):
AGGGTTAGGGTTTTTAAGTTA
Found at i:5838502 original size:14 final size:13
Alignment explanation
Indices: 5838476--5838514 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 13
5838466 GCTTAGGGTT
5838476 TTTAAGTTAAGGG
1 TTTAAGTTAAGGG
*
5838489 TTTAGAGTTTAGGG
1 TTTA-AGTTAAGGG
5838503 TTTTAAGTTAAG
1 -TTTAAGTTAAG
5838515 ATTTGTCAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
13 4 0.18
14 14 0.64
15 4 0.18
ACGTcount: A:0.28, C:0.00, G:0.28, T:0.44
Consensus pattern (13 bp):
TTTAAGTTAAGGG
Found at i:5838604 original size:21 final size:21
Alignment explanation
Indices: 5838580--5838649 Score: 97
Period size: 21 Copynumber: 3.3 Consensus size: 21
5838570 AAATTAGGGC
*
5838580 AGGGTTTTTAAGTTAAGGGTT
1 AGGGTTTTTAAGTTAAGGCTT
*
5838601 AGGGTTTTTAAGTTAAGGCAT
1 AGGGTTTTTAAGTTAAGGCTT
*
5838622 AGGG-TTTTAAGTTAAAGGTTT
1 AGGGTTTTTAAGTT-AAGGCTT
5838643 AGGGTTT
1 AGGGTTT
5838650 AGGATTTTAA
Statistics
Matches: 43, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
20 9 0.21
21 32 0.74
22 2 0.05
ACGTcount: A:0.26, C:0.01, G:0.31, T:0.41
Consensus pattern (21 bp):
AGGGTTTTTAAGTTAAGGCTT
Found at i:5838671 original size:305 final size:300
Alignment explanation
Indices: 5838282--5839327 Score: 1389
Period size: 281 Copynumber: 3.6 Consensus size: 300
5838272 AGGGTTTTAA
* * *
5838282 GGTTTTTAAGTTAAGGGCTTAGGGTATTTAAGTTAAGGGCTTAGGGTTTTTAAGTTAAGGGTTTA
1 GGTTTTTAAGTTAAGGG-TTAGGGTTTTTAAGTTAA-GGCATAGGGTTTTTAAGTTAAAGGTTTA
*
5838347 GGGTTTTTGTTAGGGTTTGTCAATTAAATTATAAATTTAATTATAAATTATAAATTTATAAATTT
64 GGGTTTTTGTTAAGGTTTGTCAATTAAATTATAAATTTAATTATAAATTATAAATTTATAAATTT
*
5838412 TTAATAAATTAGGGTAGGGTTTTTAAGTTGAGGGTTAGGGTTTTTAAGTTAAGGGCTTAGGGTTT
129 TTAATAAATTAGGGTAGGGTTTTTAAGTTAAGGGTTAGGGTTTTTAAGTTAAGGGCTTAGGGTTT
*
5838477 TTAAGTTAAGGGTTTAGAGTTT-AGGGTTTTAAGTTAAGATTTGTCAATTAAATTATAAATTTAA
194 TTAAGTTAAAGGTTTAGAGTTTAAGGGTTTTAAGTTAAGATTTGTCAATTAAATTATAAATTTAA
*
5838541 TTCTAAATTATAAATTTATAA-ATTTTAATAAATTAGGGCAG
259 TTATAAATTATAAATTTATAATATTTTAATAAATTAGGGCAG
5838582 GGTTTTTAAGTTAAGGGTTAGGGTTTTTAAGTTAAGGCATAGGG-TTTTAAGTTAAAGGTTTAGG
1 GGTTTTTAAGTTAAGGGTTAGGGTTTTTAAGTTAAGGCATAGGGTTTTTAAGTTAAAGGTTTAGG
*
5838646 GTTTAGGATTTTAAGTTAAGGTTTGTCAATTAAATTATAAATTTAATTATAATTTATAAATTTAT
66 G--T----TTTT--GTTAAGGTTTGTCAATTAAATTATAAATTTAATTATAAATTATAAATTTAT
5838711 AAATTTTTAATAAATTAGGGTAGGGTTTTTAAGTTAAGGGTTAGGGTTTTTAAGTTAAGGGCTTA
123 AAATTTTTAATAAATTAGGGTAGGGTTTTTAAGTTAAGGGTTAGGGTTTTTAAGTTAAGGGCTTA
* * *
5838776 TGGTTTTTAAGTTAAAGGTTTAGGGTTTAAGGTTTTTAAGTTAAGATTTGTCAATTAAATTATAA
188 GGGTTTTTAAGTTAAAGGTTTAGAGTTTAAGGGTTTTAAGTTAAGATTTGTCAATTAAATTATAA
* * **
5838841 ATTTAATTATAATTTATAAATTTATAATTTTTTAATAAATTAGGTTAG
253 ATTTAATTATAAATTATAAATTTATAATATTTTAATAAATTAGGGCAG
5838889 GGTTTTTAAGTTAAGGGTTAGGGTTTTTAAGTT-----A-AGGG----T---TT-AAGG-TT---
1 GGTTTTTAAGTTAAGGGTTAGGGTTTTTAAGTTAAGGCATAGGGTTTTTAAGTTAAAGGTTTAGG
** *
5838936 -TTTAAGTTAAGGTTTGTCAATTAAATTATAAATTTAATTATAATTTATAAATTTATAAATTTTT
66 GTTTTTGTTAAGGTTTGTCAATTAAATTATAAATTTAATTATAAATTATAAATTTATAAATTTTT
* * *
5839000 AATAAATTAGGGTAGAGTTTTTAAGTTAAGGGCTAGGGTTTTTAAGTTAAGGGCTTAGGATTTTT
131 AATAAATTAGGGTAGGGTTTTTAAGTTAAGGGTTAGGGTTTTTAAGTTAAGGGCTTAGGGTTTTT
*
5839065 AAGTTAAGGGTTTAG-GATTT-AGGGTTTTTAAGTTAAGATTTGTCAATTAAATTATAAATTTAA
196 AAGTTAAAGGTTTAGAG-TTTAAGGG-TTTTAAGTTAAGATTTGTCAATTAAATTATAAATTTAA
* **
5839128 TTATAATTTATAAATTTATAA-ATTTTTAATAAATTAGGTTAG
259 TTATAAATTATAAATTTATAATA-TTTTAATAAATTAGGGCAG
* *
5839170 GGTTTTTAAGTTAAGGGCTTAGGGTTTTTAAATT-----A-AGGG--TTT-AG-----GGTTTAA
1 GGTTTTTAAGTTAAGGG-TTAGGGTTTTTAAGTTAAGGCATAGGGTTTTTAAGTTAAAGGTTTAG
* *
5839221 GGTTTTTGTT-AGGGTTGTCAATTAAATTATAAATTTATTTATAAATTATAAATTTATAAATTTT
65 GGTTTTTGTTAAGGTTTGTCAATTAAATTATAAATTTAATTATAAATTATAAATTTATAAATTTT
* * *
5839285 TAATAAATCAGGTTAAGGTTTTTAAGTTAAGGGTTTAGGGTTT
130 TAATAAATTAGGGTAGGGTTTTTAAGTTAAGGG-TTAGGGTTT
5839328 AGGATTTTTA
Statistics
Matches: 687, Mismatches: 35, Indels: 61
0.88 0.04 0.08
Matches are distributed among these distances:
280 4 0.01
281 232 0.34
282 22 0.03
283 4 0.01
284 1 0.00
286 80 0.12
287 15 0.02
293 2 0.00
294 4 0.01
295 2 0.00
297 20 0.03
298 9 0.01
299 18 0.03
300 17 0.02
301 4 0.01
302 1 0.00
303 4 0.01
305 138 0.20
306 60 0.09
307 50 0.07
ACGTcount: A:0.33, C:0.02, G:0.20, T:0.45
Consensus pattern (300 bp):
GGTTTTTAAGTTAAGGGTTAGGGTTTTTAAGTTAAGGCATAGGGTTTTTAAGTTAAAGGTTTAGG
GTTTTTGTTAAGGTTTGTCAATTAAATTATAAATTTAATTATAAATTATAAATTTATAAATTTTT
AATAAATTAGGGTAGGGTTTTTAAGTTAAGGGTTAGGGTTTTTAAGTTAAGGGCTTAGGGTTTTT
AAGTTAAAGGTTTAGAGTTTAAGGGTTTTAAGTTAAGATTTGTCAATTAAATTATAAATTTAATT
ATAAATTATAAATTTATAATATTTTAATAAATTAGGGCAG
Found at i:5838761 original size:22 final size:21
Alignment explanation
Indices: 5838727--5838803 Score: 111
Period size: 22 Copynumber: 3.6 Consensus size: 21
5838717 TTAATAAATT
5838727 AGGG-TAGGGTTTTTAAGTTA
1 AGGGTTAGGGTTTTTAAGTTA
5838747 AGGGTTAGGGTTTTTAAGTTA
1 AGGGTTAGGGTTTTTAAGTTA
*
5838768 AGGGCTTATGGTTTTTAAGTTAA
1 AGGG-TTAGGGTTTTTAAGTT-A
*
5838791 AGGTTTAGGGTTT
1 AGGGTTAGGGTTT
5838804 AAGGTTTTTA
Statistics
Matches: 51, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
20 4 0.08
21 20 0.39
22 23 0.45
23 4 0.08
ACGTcount: A:0.23, C:0.01, G:0.32, T:0.43
Consensus pattern (21 bp):
AGGGTTAGGGTTTTTAAGTTA
Found at i:5838846 original size:126 final size:123
Alignment explanation
Indices: 5838749--5840337 Score: 590
Period size: 134 Copynumber: 12.5 Consensus size: 123
5838739 TTAAGTTAAG
*
5838749 GGTTAGGGTTTTTAAGTTAAGGGCTTATGGTTTTTAAGTTAAAGGTTTAGGGTTTAAGGTTTTTA
1 GGTTAGGGTTTTTAAGTTAAGGG-TTAGGGTTTTTAAGTT--A-----AGGGTTTAAGGTTTTTA
** *
5838814 AGTTAAGATTTGTCAATTAAATTATAAATTTAATTATAATTTATAAATTTATAATTTTTTAATAA
58 AGTTAAGATTTGTCAATTAAATTATAAATTTAA-TATAA-TTATAAAGGTATAAGTTTTTAATAA
5838879 ATTA
121 A-TA
*
5838883 GGTTAGGGTTTTTAAGTTAAGGGTTAGGGTTTTTAAGTTAAGGGTTTAAGGTTTTTAAGTTAAGG
1 GGTTAGGGTTTTTAAGTTAAGGGTTAGGGTTTTTAAGTTAAGGGTTTAAGGTTTTTAAGTTAAGA
** *
5838948 TTTGTCAATTAAATTATAAATTTAATTATAATTTATAAATTTATAAATTTTTAATAAATTA
66 TTTGTCAATTAAATTATAAATTTAA-TATAA-TTATAAAGGTATAAGTTTTTAATAAA-TA
* * * *
5839009 GGGTAGAGTTTTTAAGTTAAGGGCTAGGGTTTTTAAGTTAAGGGCTT-AGGATTTTTAAGTTAAG
1 GGTTAGGGTTTTTAAGTTAAGGGTTAGGGTTTTTAAGTTAAGGGTTTAAGG-TTTTTAAGTTAA-
* * * ** * * * * * * *
5839073 GGTTTAG-GATTTAGGGTTTTTAAGTTAAGAT-TTGTCAATTAAA-TTATAAATTTAATT-ATAA
64 GATTT-GTCAATTA-AATTATAAATTTAATATAAT-T--A-TAAAGGTATAAGTTT--TTAATAA
5839134 TTTATAA
121 ---AT-A
** *** * * * * *
5839141 ATTTATAAATTTTTAA-TAAATTAGGTTAGGGTTTTTAAGTTAAGGGCTTAGGGTTTTTAAATTA
1 GGTTA-GGGTTTTTAAGTTAA--GGGTTAGGGTTTTTAAGTTAAGGGTTTAAGGTTTTTAAGTTA
* * * * ** *
5839205 AGGGTTTAGGGTTTAAGGTT--TTTGTTAGGGTTGTCAAT-TAAATTATAAA--T-TTA-TTTAT
63 A-GATTT---G-TCAA--TTAAATT-ATA-AATT-T-AATAT-AATTATAAAGGTATAAGTTT-T
*
5839263 AAATTATAA-A
115 TAA-TA-AATA
* *** * * *
5839273 -TTTATAAATTTTTAA-TAAATCAGGTTAAGGTTTTTAAGTTAAGGGTTTAGGGTTTAGGATTTT
1 GGTTA-GGGTTTTTAAGTTAA--GGGTTAGGGTTTTTAAGTTAAGGGTTTA------AGG-TTTT
* * ** *
5839336 TAAGTTAAGGTTTGTCAATTAAATTATAAATTTAATTATATTTTATAAATTTATAAATTTTTAAT
56 TAAGTTAAGATTTGTCAATTAAATTATAAATTTAA-TATA-ATTATAAAGGTATAAGTTTTTAAT
5839401 AAATTA
119 AAA-TA
*
5839407 GGTTAGGGTTTTTAAGTTAAGGGCTTAAGGTTTTTAAGTTAAGGGTTTACGATTTACGGTTTTTA
1 GGTTAGGGTTTTTAAGTTAAGGG-TTAGGGTTTTTAAGTTAAGGGTTT---A---A-GGTTTTTA
** *
5839472 AGTTAAGATTTGTCAATTAAATTATAAATTTAATTATAATTTATAAATTTATAAAATTTTTAATA
58 AGTTAAGATTTGTCAATTAAATTATAAATTTAA-TATAA-TTATAAAGGTAT-AAGTTTTTAATA
5839537 AATTA
120 AA-TA
* *** * *
5839542 GGTTAGGGTTTTTAAGTTAAGGGCTTA-GG-ATTTAAGGTT-TTTG-TTAGGGTTTGTCAA-TTA
1 GGTTAGGGTTTTTAAGTTAAGGG-TTAGGGTTTTTAA-GTTAAGGGTTTAAGGTTT-TTAAGTTA
* *
5839602 A-A--T-T--A-TAAATTTATAAATTT--T-TAA-TA-AATTAGGT-TAGGGTTTTTAAGTTAA-
63 AGATTTGTCAATTAAA-TTATAAATTTAATATAATTATAA--AGGTATA-AGTTTTTAA-TAAAT
*
5839653 G
123 A
* ** *
5839654 GGCTTAGGGTTTTTAAATTAAGGGTTTAGGG-TTTT--GTT-AGGGTTT---GTCAATTAAATTA
1 GG-TTAGGGTTTTTAAGTTAAGGG-TTAGGGTTTTTAAGTTAAGGGTTTAAGGT-TTTTAAGTTA
* * ** * ** *
5839712 TAAATTTATTTA-TAAATTATAAATTTATAAATTTTTAATAAATTAGGT-TAGAGTTTTTAAGTT
63 -AGATTTGTCAATTAAATTATAAATTTA-ATATAATT-AT-AA--AGGTATA-AGTTTTTAA-TA
*
5839775 AA-G
120 AATA
5839778 GGTTAGGG-TTTTAAGTTAAGGGTTAGGGTTTTTAAGTTAAGGGTTTAAGGTTTAGGGTTTTAAG
1 GGTTAGGGTTTTTAAGTTAAGGGTTAGGGTTTTTAAGTTAAGGGTTTAAGG--T----TTTTAAG
* * * ** *
5839842 TTAAGGTTTGTCAATTAAATTGTAAATTTAATTATATTTTATAAATTTATAAATTTTTAATAAAT
60 TTAAGATTTGTCAATTAAATTATAAATTTAA-TATA-ATTATAAAGGTATAAGTTTTTAATAAA-
5839907 TA
122 TA
* * *** * *
5839909 GGTTAGGGTTTTTAAGTTAAGGGCTTA-AG-ATTTAAGGTT-TTTG-TTAGGGTTTGTCAA-TTA
1 GGTTAGGGTTTTTAAGTTAAGGG-TTAGGGTTTTTAA-GTTAAGGGTTTAAGGTTT-TTAAGTTA
** *
5839969 A-A--T-T--A-TAAATT-T--ATTT-ATA-AATTATAAATTTATAAATTTTTAATAAATTA
63 AGATTTGTCAATTAAATTATAAATTTAATATAATTATAAAGGTATAAGTTTTTAATAAA-TA
* * * * **
5840019 GGTTAGGGTTTTTAAGCTAAAGGTTAGGGTTTTTAAGTTAAGGGCTTAGGGTTTAAGATTTTTGT
1 GGTTAGGGTTTTTAAGTTAAGGGTTAGGGTTTTTAAGTTAAGGGTTTAAGG-TT----TTTAAGT
** * * ** *
5840084 TCGGGTTTGTCAATTAAATTATAAATTTATTTATAATTTATAAATTTATAAATTTTTAATAAATT
61 TAAGATTTGTCAATTAAATTATAAATTTA-ATATAA-TTATAAAGGTATAAGTTTTTAATAAA-T
5840149 A
123 A
* * * *
5840150 GGTTAGGGTTTTTAAGTTAAGGGCTTAGGTTTTTTAAATTAAGGGTTTAGGGTTTTT--GTTAGG
1 GGTTAGGGTTTTTAAGTTAAGGG-TTAGGGTTTTTAAGTTAAGGGTTTAAGGTTTTTAAGTTAAG
* * * * ** *
5840213 GTTTGTCAATTAAATTATAAATATATTTATAAACTATAAATTTATAATTTTTTAATAAATTA
65 ATTTGTCAATTAAATTATAAATTTA-ATAT-AATTATAAAGGTATAAGTTTTTAATAAA-TA
* *
5840275 GGTTAGGGTTTTTAAGTTAAGGGTTAGGGTTTTTAAGTTAAGGGTTTAGGGATTTTAAGTTAA
1 GGTTAGGGTTTTTAAGTTAAGGGTTAGGGTTTTTAAGTTAAGGGTTTAAGGTTTTTAAGTTAA
5840338 AGGTTTAGGG
Statistics
Matches: 1180, Mismatches: 138, Indels: 282
0.74 0.09 0.18
Matches are distributed among these distances:
109 8 0.01
110 57 0.05
111 12 0.01
112 16 0.01
113 36 0.03
114 15 0.01
115 4 0.00
116 13 0.01
117 14 0.01
118 5 0.00
119 11 0.01
120 3 0.00
121 10 0.01
122 19 0.02
123 7 0.01
124 73 0.06
125 108 0.09
126 149 0.13
127 18 0.02
128 23 0.02
129 16 0.01
130 23 0.02
131 128 0.11
132 66 0.06
133 67 0.06
134 173 0.15
135 61 0.05
136 5 0.00
137 12 0.01
138 18 0.02
139 2 0.00
140 4 0.00
141 3 0.00
142 1 0.00
ACGTcount: A:0.33, C:0.02, G:0.18, T:0.46
Consensus pattern (123 bp):
GGTTAGGGTTTTTAAGTTAAGGGTTAGGGTTTTTAAGTTAAGGGTTTAAGGTTTTTAAGTTAAGA
TTTGTCAATTAAATTATAAATTTAATATAATTATAAAGGTATAAGTTTTTAATAAATA
Found at i:5838897 original size:22 final size:21
Alignment explanation
Indices: 5838869--5838942 Score: 69
Period size: 21 Copynumber: 3.4 Consensus size: 21
5838859 AATTTATAAT
5838869 TTTTTAA-TAAATTAGGTTAGGG
1 TTTTTAAGTAAA--AGGTTAGGG
* *
5838891 TTTTTAAGTTAAGGGTTAGGG
1 TTTTTAAGTAAAAGGTTAGGG
* * *
5838912 TTTTTAAGTTAAGGGTTTAAGG
1 TTTTTAAGTAAAAGG-TTAGGG
5838934 TTTTTAAGT
1 TTTTTAAGT
5838943 TAAGGTTTGT
Statistics
Matches: 47, Mismatches: 3, Indels: 4
0.87 0.06 0.07
Matches are distributed among these distances:
21 23 0.49
22 21 0.45
23 3 0.06
ACGTcount: A:0.27, C:0.00, G:0.26, T:0.47
Consensus pattern (21 bp):
TTTTTAAGTAAAAGGTTAGGG
Found at i:5838898 original size:134 final size:134
Alignment explanation
Indices: 5838749--5839327 Score: 698
Period size: 126 Copynumber: 4.2 Consensus size: 134
5838739 TTAAGTTAAG
* *
5838749 GGTTAGGGTTTTTAAGTTAAGGGCTTATGGTTTTTAAGTTAAAGGTTTAGGGTTTAAGGTTTTTA
1 GGTTAGGGTTTTTAAGTTAAGGGCTTAGGGTTTTTAAGTTAAGGGTTTAGGGTTTAAGGTTTTTA
*
5838814 AGTTAAGATTTGTCAATTAAATTATAAATTTAATTATAATTTATAAATTTATAATTTTTTAATAA
66 AGTTAAGATTTGTCAATTAAATTATAAATTTAATTATAATTTATAAATTTATAAATTTTTAATAA
5838879 ATTA
131 ATTA
5838883 GGTTAGGGTTTTTAAGTTAAGGG-TTAGGGTTTTTAAGTT-A------AGGGTTTAAGGTTTTTA
1 GGTTAGGGTTTTTAAGTTAAGGGCTTAGGGTTTTTAAGTTAAGGGTTTAGGGTTTAAGGTTTTTA
*
5838940 AGTTAAGGTTTGTCAATTAAATTATAAATTTAATTATAATTTATAAATTTATAAATTTTTAATAA
66 AGTTAAGATTTGTCAATTAAATTATAAATTTAATTATAATTTATAAATTTATAAATTTTTAATAA
5839005 ATTA
131 ATTA
* * * *
5839009 GGGTAGAGTTTTTAAGTTAAGGGC-TAGGGTTTTTAAGTTAAGGGCTTAGGATTTTTAAGTTAAG
1 GGTTAGGGTTTTTAAGTTAAGGGCTTAGGGTTTTTAAGTTAAGGGTTTAGG----GT---TTAA-
* *
5839073 GGTTTAGGATTTAGGGTTTTTAAG-TTAAGATTTGTCAATTAAATTATAAATTTAATTATAATTT
58 GG-TT----TTTA-AG---TTAAGATT-T-----GTCAATTAAATTATAAATTTAATTATAATTT
5839137 ATAAATTTATAAATTTTTAATAAATTA
108 ATAAATTTATAAATTTTTAATAAATTA
*
5839164 GGTTAGGGTTTTTAAGTTAAGGGCTTAGGGTTTTTAAATTAAGGGTTTAGGGTTTAAGGTTTTT-
1 GGTTAGGGTTTTTAAGTTAAGGGCTTAGGGTTTTTAAGTTAAGGGTTTAGGGTTTAAGGTTTTTA
** * *
5839228 -GTT-AGGGTTGTCAATTAAATTATAAATTTATTTATAAATTATAAATTTATAAATTTTTAATAA
66 AGTTAAGATTTGTCAATTAAATTATAAATTTAATTATAATTTATAAATTTATAAATTTTTAATAA
*
5839291 ATCA
131 ATTA
* *
5839295 GGTTAAGGTTTTTAAGTTAAGGGTTTAGGGTTT
1 GGTTAGGGTTTTTAAGTTAAGGGCTTAGGGTTT
5839328 AGGATTTTTA
Statistics
Matches: 392, Mismatches: 20, Indels: 69
0.81 0.04 0.14
Matches are distributed among these distances:
126 120 0.31
127 1 0.00
131 86 0.22
132 1 0.00
133 18 0.05
134 23 0.06
136 2 0.01
137 4 0.01
140 5 0.01
141 2 0.01
142 2 0.01
143 3 0.01
146 4 0.01
147 3 0.01
148 2 0.01
149 6 0.02
150 5 0.01
152 1 0.00
155 80 0.20
156 24 0.06
ACGTcount: A:0.33, C:0.02, G:0.19, T:0.46
Consensus pattern (134 bp):
GGTTAGGGTTTTTAAGTTAAGGGCTTAGGGTTTTTAAGTTAAGGGTTTAGGGTTTAAGGTTTTTA
AGTTAAGATTTGTCAATTAAATTATAAATTTAATTATAATTTATAAATTTATAAATTTTTAATAA
ATTA
Found at i:5838907 original size:21 final size:21
Alignment explanation
Indices: 5838883--5838947 Score: 112
Period size: 21 Copynumber: 3.0 Consensus size: 21
5838873 TAATAAATTA
5838883 GGTTAGGGTTTTTAAGTTAAG
1 GGTTAGGGTTTTTAAGTTAAG
5838904 GGTTAGGGTTTTTAAGTTAAG
1 GGTTAGGGTTTTTAAGTTAAG
*
5838925 GGTTTAAGGTTTTTAAGTTAAG
1 GG-TTAGGGTTTTTAAGTTAAG
5838947 G
1 G
5838948 TTTGTCAATT
Statistics
Matches: 42, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
21 23 0.55
22 19 0.45
ACGTcount: A:0.25, C:0.00, G:0.32, T:0.43
Consensus pattern (21 bp):
GGTTAGGGTTTTTAAGTTAAG
Found at i:5839040 original size:21 final size:21
Alignment explanation
Indices: 5839008--5839074 Score: 100
Period size: 21 Copynumber: 3.2 Consensus size: 21
5838998 TTAATAAATT
*
5839008 AGGG-TAGAGTTTTTAAGTTA
1 AGGGCTAGGGTTTTTAAGTTA
5839028 AGGGCTAGGGTTTTTAAGTTA
1 AGGGCTAGGGTTTTTAAGTTA
*
5839049 AGGGCTTAGGATTTTTAAGTTA
1 AGGGC-TAGGGTTTTTAAGTTA
5839071 AGGG
1 AGGG
5839075 TTTAGGATTT
Statistics
Matches: 43, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
20 4 0.09
21 20 0.47
22 19 0.44
ACGTcount: A:0.27, C:0.03, G:0.33, T:0.37
Consensus pattern (21 bp):
AGGGCTAGGGTTTTTAAGTTA
Found at i:5839081 original size:22 final size:21
Alignment explanation
Indices: 5839017--5839084 Score: 100
Period size: 22 Copynumber: 3.1 Consensus size: 21
5839007 TAGGGTAGAG
* *
5839017 TTTTTAAGTTAAGGGCTAGGG
1 TTTTTAAGTTAAGGGTTAGGA
5839038 TTTTTAAGTTAAGGGCTTAGGA
1 TTTTTAAGTTAAGGG-TTAGGA
5839060 TTTTTAAGTTAAGGGTTTAGGA
1 TTTTTAAGTTAAGGG-TTAGGA
5839082 TTT
1 TTT
5839085 AGGGTTTTTA
Statistics
Matches: 43, Mismatches: 3, Indels: 1
0.91 0.06 0.02
Matches are distributed among these distances:
21 15 0.35
22 28 0.65
ACGTcount: A:0.25, C:0.03, G:0.28, T:0.44
Consensus pattern (21 bp):
TTTTTAAGTTAAGGGTTAGGA
Found at i:5839153 original size:155 final size:148
Alignment explanation
Indices: 5838283--5839210 Score: 1049
Period size: 155 Copynumber: 6.3 Consensus size: 148
5838273 GGGTTTTAAG
* * *
5838283 GTTTTTAAGTTAAGGGCTTAGGGTATTTAAGTTAAGGGCTTAGGGTTTTTAAGTTAAGGGTTTAG
1 GTTTTTAAGTTAAGGGCTTAGGGTTTTTAAGTTAAGGG-TTAGGATTTTTAAGTTAAGGGTTTAA
* * *
5838348 GGTTTTT--GTTAGGGTTTGTCAATTAAATTATAAATTTAATTATAAATTATAAATTTATAAATT
65 GGTTTTTAAGTTAAGATTTGTCAATTAAATTATAAATTTAATTATAATTTATAAATTTATAAATT
*
5838411 TTTAATAAATTAGGGTAGG
130 TTTAATAAATTAGGGTAGA
* *
5838430 GTTTTTAAGTTGAGGG-TTAGGGTTTTTAAGTTAAGGGCTTAGGGTTTTTAAGTTAAGGGTTTAG
1 GTTTTTAAGTTAAGGGCTTAGGGTTTTTAAGTTAAGGG-TTAGGATTTTTAAGTTAAGGGTTT--
* * *
5838494 AGTTTAGGGTTTTAAGTTAAGATTTGTCAATTAAATTATAAATTTAATTCTAAATTATAAATTTA
63 A----AGGTTTTTAAGTTAAGATTTGTCAATTAAATTATAAATTTAATTATAATTTATAAATTTA
* *
5838559 TAAA-TTTTAATAAATTAGGGCAGG
124 TAAATTTTTAATAAATTAGGGTAGA
** * *
5838583 GTTTTTAAGTTAAGGG-TTAGGGTTTTTAAGTTAAGGCATAGG-GTTTTAAGTTAAAGGTTTAGG
1 GTTTTTAAGTTAAGGGCTTAGGGTTTTTAAGTTAAGGGTTAGGATTTTTAAGTTAAGGGTTTA--
* *
5838646 GTTTAGGATTTTAAGTTAAGGTTTGTCAATTAAATTATAAATTTAATTATAATTTATAAATTTAT
64 ----AGGTTTTTAAGTTAAGATTTGTCAATTAAATTATAAATTTAATTATAATTTATAAATTTAT
*
5838711 AAATTTTTAATAAATTAGGGTAGG
125 AAATTTTTAATAAATTAGGGTAGA
5838735 GTTTTTAAGTTAAGGG-TTAGGGTTTTTAAGTTAAGGGCTTATGG-TTTTTAAGTTAAAGGTTTA
1 GTTTTTAAGTTAAGGGCTTAGGGTTTTTAAGTTAAGGG-TTA-GGATTTTTAAGTT--A-----A
5838798 GGGTTTAAGGTTTTTAAGTTAAGATTTGTCAATTAAATTATAAATTTAATTATAATTTATAAATT
57 GGGTTTAAGGTTTTTAAGTTAAGATTTGTCAATTAAATTATAAATTTAATTATAATTTATAAATT
* * *
5838863 TATAATTTTTTAATAAATTAGGTTAGG
122 TATAAATTTTTAATAAATTAGGGTAGA
5838890 GTTTTTAAGTTAAGGG-TTAGGGTTTTTAAGTTAAGGGTTTAAGG-TTTTTAAGTTAA-GGTTT-
1 GTTTTTAAGTTAAGGGCTTAGGGTTTTTAAGTTAAGGG-TT-AGGATTTTTAAGTTAAGGGTTTA
* * * *
5838951 --G---TCAA-TTAA-A-TTATAAATTTAATTAT-AATTT-A-TA-AATTTATAAA-TT-T----
64 AGGTTTTTAAGTTAAGATTTGTCAATTAAATTATAAATTTAATTATAATTTATAAATTTATAAAT
5838998 --TTAATAAATTAGGGTAGA
129 TTTTAATAAATTAGGGTAGA
5839016 GTTTTTAAGTTAAGGGC-TAGGGTTTTTAAGTTAAGGGCTTAGGATTTTTAAGTTAAGGGTTTAG
1 GTTTTTAAGTTAAGGGCTTAGGGTTTTTAAGTTAAGGG-TTAGGATTTTTAAGTTAAGGGTTT--
5839080 GATTTAGGGTTTTTAAGTTAAGATTTGTCAATTAAATTATAAATTTAATTATAATTTATAAATTT
63 -A---A-GGTTTTTAAGTTAAGATTTGTCAATTAAATTATAAATTTAATTATAATTTATAAATTT
* *
5839145 ATAAATTTTTAATAAATTAGGTTAGG
123 ATAAATTTTTAATAAATTAGGGTAGA
*
5839171 GTTTTTAAGTTAAGGGCTTAGGGTTTTTAAATTAAGGGTT
1 GTTTTTAAGTTAAGGGCTTAGGGTTTTTAAGTTAAGGGTT
5839211 TAGGGTTTAA
Statistics
Matches: 687, Mismatches: 41, Indels: 98
0.83 0.05 0.12
Matches are distributed among these distances:
125 3 0.00
126 66 0.10
127 5 0.01
132 1 0.00
133 2 0.00
134 10 0.01
135 2 0.00
136 1 0.00
137 6 0.01
138 13 0.02
139 1 0.00
140 7 0.01
141 7 0.01
142 1 0.00
143 13 0.02
144 6 0.01
145 1 0.00
146 47 0.07
147 30 0.04
148 4 0.01
149 2 0.00
151 80 0.12
152 65 0.09
153 57 0.08
154 62 0.09
155 167 0.24
156 21 0.03
161 7 0.01
ACGTcount: A:0.33, C:0.02, G:0.20, T:0.45
Consensus pattern (148 bp):
GTTTTTAAGTTAAGGGCTTAGGGTTTTTAAGTTAAGGGTTAGGATTTTTAAGTTAAGGGTTTAAG
GTTTTTAAGTTAAGATTTGTCAATTAAATTATAAATTTAATTATAATTTATAAATTTATAAATTT
TTAATAAATTAGGGTAGA
Found at i:5839191 original size:22 final size:22
Alignment explanation
Indices: 5839166--5839218 Score: 88
Period size: 22 Copynumber: 2.4 Consensus size: 22
5839156 ATAAATTAGG
*
5839166 TTAGGGTTTTTAAGTTAAGGGC
1 TTAGGGTTTTTAAATTAAGGGC
*
5839188 TTAGGGTTTTTAAATTAAGGGT
1 TTAGGGTTTTTAAATTAAGGGC
5839210 TTAGGGTTT
1 TTAGGGTTT
5839219 AAGGTTTTTG
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.23, C:0.02, G:0.30, T:0.45
Consensus pattern (22 bp):
TTAGGGTTTTTAAATTAAGGGC
Found at i:5839251 original size:112 final size:108
Alignment explanation
Indices: 5839126--5839788 Score: 412
Period size: 112 Copynumber: 5.8 Consensus size: 108
5839116 TTATAAATTT
** * *
5839126 AATTATAATTTATAAATTTATAAATTTTTAATAAATTAGGT-TAGGGTTTTTAAGTTAA-GGGCT
1 AATTA-AA-TTATAAATTTATAAATTTTT-ATAAATTA--TATA-AATTTTTAA-TAAATAGG-T
*
5839189 TAGGGTTTTTAAATTAAGGGTTTAGGGTTTAAGGTTTTTGTTAGGGTTGTC
58 TAGGGTTTTTAAGTTAAGGGTTTAGGGTTTAAGGTTTTTGTTAGGGTTGTC
** ** *
5839240 AATTAAATTATAAATTTATTTATAAATTATAAATT-TATAAATTTTTAATAAATCAGGTTAAGGT
1 AATTAAATTATAAATTTATAAAT-TTTTATAAATTATATAAATTTTTAATAAAT-AGGTTAGGGT
*
5839304 TTTTAAGTTAAGGGTTTAGGGTTT-AGGATTTTTAAGTTAAGGTTTGTC
64 TTTTAAGTTAAGGGTTTAGGGTTTAAGG-TTTTT--GTT-AGGGTTGTC
*
5839352 AATTAAATTATAAATTTA-ATTATATTTTATAAATT-TATAAATTTTTAATAAATTAGGTTAGGG
1 AATTAAATTATAAATTTATA-AAT-TTTTATAAATTATATAAATTTTTAATAAA-TAGGTTAGGG
* * * * *
5839415 TTTTTAAGTTAAGGGCTTAAGGTTTTTAA-GTTAAGGGTTTACGATTTACGGTTTTT
63 TTTTTAAGTTAAGGG-TTTAGG-GTTTAAGGTT-----TTT--G--TTAGGGTTGTC
*
5839471 AAGTTAAGATTTGTCAATTAAA-TTATAAATTTAATTATAATTTATAAATTTATAAAATTTTTAA
1 AA-TTAA-A--T-T--A-TAAATTTATAAATTT--TTATAA---AT---TATAT-AAATTTTTAA
* *
5839535 TAAATTAGGTTAGGGTTTTTAAGTTAAGGGCTTAGGATTTAAGGTTTTTGTTAGGGTTTGTC
49 TAAA-TAGGTTAGGGTTTTTAAGTTAAGGGTTTAGGGTTTAAGGTTTTTGTTAGGG-TTGTC
** * *
5839597 AATTAAATTATAAATTTATAAATTTTTAATAAATTAGGT-TAGGGTTTTTAAGTTAA-GGGCTTA
1 AATTAAATTATAAATTTATAAATTTTT-ATAAATTA--TATA-AATTTTTAA-TAAATAGG-TTA
*
5839660 GGGTTTTTAAATTAAGGGTTTA--G-----GG-TTTTGTTAGGGTTTGTC
60 GGGTTTTTAAGTTAAGGGTTTAGGGTTTAAGGTTTTTGTTAGGG-TTGTC
** ** *
5839702 AATTAAATTATAAATTTATTTATAAATTATAAATT-TATAAATTTTTAATAAATTAGGTTAGAGT
1 AATTAAATTATAAATTTATAAAT-TTTTATAAATTATATAAATTTTTAATAAA-TAGGTTAGGGT
5839766 TTTTAAGTTAAGGG-TTAGGGTTT
64 TTTTAAGTTAAGGGTTTAGGGTTT
5839789 TAAGTTAAGG
Statistics
Matches: 445, Mismatches: 47, Indels: 122
0.72 0.08 0.20
Matches are distributed among these distances:
101 6 0.01
102 27 0.06
103 5 0.01
105 45 0.10
106 4 0.01
108 6 0.01
109 42 0.09
110 4 0.01
111 3 0.01
112 104 0.23
113 43 0.10
114 13 0.03
115 3 0.01
117 2 0.00
118 13 0.03
119 18 0.04
120 6 0.01
121 2 0.00
122 1 0.00
123 1 0.00
124 2 0.00
125 11 0.02
126 11 0.02
127 12 0.03
129 3 0.01
130 2 0.00
133 6 0.01
134 10 0.02
135 40 0.09
ACGTcount: A:0.34, C:0.02, G:0.17, T:0.47
Consensus pattern (108 bp):
AATTAAATTATAAATTTATAAATTTTTATAAATTATATAAATTTTTAATAAATAGGTTAGGGTTT
TTAAGTTAAGGGTTTAGGGTTTAAGGTTTTTGTTAGGGTTGTC
Found at i:5839315 original size:14 final size:14
Alignment explanation
Indices: 5839296--5839348 Score: 54
Period size: 14 Copynumber: 3.7 Consensus size: 14
5839286 AATAAATCAG
5839296 GTTAAGGTTTTTAA
1 GTTAAGGTTTTTAA
* *
5839310 GTTAAGG-GTTTAGG
1 GTTAAGGTTTTTA-A
*
5839324 GTTTAGGATTTTTAA
1 GTTAAGG-TTTTTAA
5839339 GTTAAGGTTT
1 GTTAAGGTTT
5839349 GTCAATTAAA
Statistics
Matches: 30, Mismatches: 6, Indels: 6
0.71 0.14 0.14
Matches are distributed among these distances:
13 4 0.13
14 16 0.53
15 6 0.20
16 4 0.13
ACGTcount: A:0.25, C:0.00, G:0.28, T:0.47
Consensus pattern (14 bp):
GTTAAGGTTTTTAA
Found at i:5839574 original size:113 final size:109
Alignment explanation
Indices: 5839435--5839784 Score: 366
Period size: 113 Copynumber: 3.2 Consensus size: 109
5839425 AAGGGCTTAA
* * *
5839435 GGTTTTTAAGTTAAGGGTTTACGATTTACGGTTTTTAAGTTAAGATTTGTCAATTAAATTATAAA
1 GGTTTTTAAGTTAAGGG-TTAGGATTTA-GGTTTTT--GTTAGGGTTTGTCAATTAAATTATAAA
5839500 TTTAATTATAATTTATAAATTTATAAAATTTTTAATAAATTAGGTTAG
62 TTTAATTATAATTTATAAATTTATAAAATTTTTAATAAATTAGGTTAG
5839548 GGTTTTTAAGTTAAGGGCTTAGGATTTAAGGTTTTTGTTAGGGTTTGTCAATTAAATTATAAATT
1 GGTTTTTAAGTTAAGGG-TTAGGATTT-AGGTTTTTGTTAGGGTTTGTCAATTAAATTATAAATT
*** * *
5839613 T-A-TA-AATTTTTAATAAA-TTAGGTTAGGGTTTTTAAGTTAA--GGGCTTAG
64 TAATTATAA--TTT-ATAAATTTA---TAAAATTTTTAA-TAAATTAGG-TTAG
* *
5839661 GGTTTTTAAATTAA--G---GG-TTTAGGGTTTTGTTAGGGTTTGTCAATTAAATTATAAATTTA
1 GGTTTTTAAGTTAAGGGTTAGGATTTAGGTTTTTGTTAGGGTTTGTCAATTAAATTATAAATTTA
* *
5839720 TTTATAAATTATAAATTTAT-AAATTTTTAATAAATTAGGTTAG
66 ATTATAATTTATAAATTTATAAAATTTTTAATAAATTAGGTTAG
*
5839763 AGTTTTTAAGTTAAGGGTTAGG
1 GGTTTTTAAGTTAAGGGTTAGG
5839785 GTTTTAAGTT
Statistics
Matches: 197, Mismatches: 20, Indels: 46
0.75 0.08 0.17
Matches are distributed among these distances:
101 3 0.02
102 23 0.12
103 3 0.02
104 1 0.01
105 42 0.21
106 8 0.04
107 6 0.03
108 4 0.02
109 2 0.01
110 7 0.04
111 34 0.17
112 2 0.01
113 58 0.29
114 4 0.02
ACGTcount: A:0.34, C:0.02, G:0.18, T:0.46
Consensus pattern (109 bp):
GGTTTTTAAGTTAAGGGTTAGGATTTAGGTTTTTGTTAGGGTTTGTCAATTAAATTATAAATTTA
ATTATAATTTATAAATTTATAAAATTTTTAATAAATTAGGTTAG
Found at i:5839660 original size:22 final size:22
Alignment explanation
Indices: 5839635--5839688 Score: 90
Period size: 22 Copynumber: 2.5 Consensus size: 22
5839625 ATAAATTAGG
*
5839635 TTAGGGTTTTTAAGTTAAGGGC
1 TTAGGGTTTTTAAATTAAGGGC
*
5839657 TTAGGGTTTTTAAATTAAGGGT
1 TTAGGGTTTTTAAATTAAGGGC
5839679 TTAGGGTTTT
1 TTAGGGTTTT
5839689 GTTAGGGTTT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.22, C:0.02, G:0.30, T:0.46
Consensus pattern (22 bp):
TTAGGGTTTTTAAATTAAGGGC
Found at i:5839736 original size:26 final size:26
Alignment explanation
Indices: 5839705--5839756 Score: 79
Period size: 26 Copynumber: 2.0 Consensus size: 26
5839695 GTTTGTCAAT
*
5839705 TAAA-TTATAAATTTATTTATAAATTA
1 TAAATTTATAAATTT-TTAATAAATTA
5839731 TAAATTTATAAATTTTTAATAAATTA
1 TAAATTTATAAATTTTTAATAAATTA
5839757 GGTTAGAGTT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
26 14 0.58
27 10 0.42
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (26 bp):
TAAATTTATAAATTTTTAATAAATTA
Found at i:5839791 original size:20 final size:21
Alignment explanation
Indices: 5839757--5839822 Score: 116
Period size: 21 Copynumber: 3.2 Consensus size: 21
5839747 TAATAAATTA
*
5839757 GGTTAGAGTTTTTAAGTTAAG
1 GGTTAGGGTTTTTAAGTTAAG
5839778 GGTTAGGG-TTTTAAGTTAAG
1 GGTTAGGGTTTTTAAGTTAAG
5839798 GGTTAGGGTTTTTAAGTTAAG
1 GGTTAGGGTTTTTAAGTTAAG
5839819 GGTT
1 GGTT
5839823 TAAGGTTTAG
Statistics
Matches: 43, Mismatches: 1, Indels: 2
0.93 0.02 0.04
Matches are distributed among these distances:
20 20 0.47
21 23 0.53
ACGTcount: A:0.24, C:0.00, G:0.33, T:0.42
Consensus pattern (21 bp):
GGTTAGGGTTTTTAAGTTAAG
Found at i:5839822 original size:15 final size:14
Alignment explanation
Indices: 5839802--5839847 Score: 58
Period size: 14 Copynumber: 3.2 Consensus size: 14
5839792 GTTAAGGGTT
5839802 AGGGTTTTTAAGTTA
1 AGGG-TTTTAAGTTA
*
5839817 AGGG-TTTAAGGTTT
1 AGGGTTTTAA-GTTA
5839831 AGGGTTTTAAGTTA
1 AGGGTTTTAAGTTA
5839845 AGG
1 AGG
5839848 TTTGTCAATT
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
13 5 0.19
14 13 0.48
15 9 0.33
ACGTcount: A:0.26, C:0.00, G:0.33, T:0.41
Consensus pattern (14 bp):
AGGGTTTTAAGTTA
Found at i:5839839 original size:28 final size:29
Alignment explanation
Indices: 5839793--5839847 Score: 94
Period size: 28 Copynumber: 1.9 Consensus size: 29
5839783 GGGTTTTAAG
5839793 TTAAGGGTTAGGGTTTTTAAGTTAAGGGT
1 TTAAGGGTTAGGGTTTTTAAGTTAAGGGT
*
5839822 TTAAGGTTTAGGG-TTTTAAGTTAAGG
1 TTAAGGGTTAGGGTTTTTAAGTTAAGG
5839848 TTTGTCAATT
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
28 13 0.52
29 12 0.48
ACGTcount: A:0.25, C:0.00, G:0.33, T:0.42
Consensus pattern (29 bp):
TTAAGGGTTAGGGTTTTTAAGTTAAGGGT
Found at i:5839850 original size:20 final size:20
Alignment explanation
Indices: 5839766--5839822 Score: 105
Period size: 20 Copynumber: 2.8 Consensus size: 20
5839756 AGGTTAGAGT
5839766 TTTTAAGTTAAGGGTTAGGG
1 TTTTAAGTTAAGGGTTAGGG
5839786 TTTTAAGTTAAGGGTTAGGG
1 TTTTAAGTTAAGGGTTAGGG
5839806 TTTTTAAGTTAAGGGTT
1 -TTTTAAGTTAAGGGTT
5839823 TAAGGTTTAG
Statistics
Matches: 36, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
20 20 0.56
21 16 0.44
ACGTcount: A:0.25, C:0.00, G:0.32, T:0.44
Consensus pattern (20 bp):
TTTTAAGTTAAGGGTTAGGG
Found at i:5839877 original size:152 final size:145
Alignment explanation
Indices: 5839633--5839931 Score: 440
Period size: 152 Copynumber: 2.0 Consensus size: 145
5839623 TAATAAATTA
*
5839633 GGTTAGGGTTTTTAAGTTAAGGGCTTAGGGTTTTTAAATTAAGGGTTTAGGGTTTTGTTAGGGTT
1 GGTTAGGGTTTTTAAGTTAAGGGCTTAGGGTTTTTAAATTAAGGGTTTAGGGTTTTGTTAAGGTT
*
5839698 TGTCAATTAAATTATAAATTTATTTATAAATTATAAATTTATAAATTTTTAATAAATTAGGTTAG
66 TGTCAATTAAATTATAAATTTAATTATAAATTATAAATTTATAAATTTTTAATAAATTAGGTTAG
5839763 AGTTTTTAAGTTAAG
131 AGTTTTTAAGTTAAG
*
5839778 GGTTAGGG-TTTTAAGTTAAGGG-TTAGGGTTTTTAAGTTAAGGGTTTAAGGTTTAGGGTTTTAA
1 GGTTAGGGTTTTTAAGTTAAGGGCTTAGGGTTTTTAAATTAA--G-----GGTTTAGGGTTTT--
* **
5839841 GTTAAGGTTTGTCAATTAAATTGTAAATTTAATTATATTTTATAAATTTATAAATTTTTAATAAA
57 GTTAAGGTTTGTCAATTAAATTATAAATTTAATTATAAATTATAAATTTATAAATTTTTAATAAA
*
5839906 TTAGGTTAGGGTTTTTAAGTTAAG
122 TTAGGTTAGAGTTTTTAAGTTAAG
5839930 GG
1 GG
5839932 CTTAAGATTT
Statistics
Matches: 138, Mismatches: 7, Indels: 11
0.88 0.04 0.07
Matches are distributed among these distances:
143 17 0.12
144 14 0.10
145 9 0.07
150 13 0.09
152 85 0.62
ACGTcount: A:0.32, C:0.01, G:0.21, T:0.46
Consensus pattern (145 bp):
GGTTAGGGTTTTTAAGTTAAGGGCTTAGGGTTTTTAAATTAAGGGTTTAGGGTTTTGTTAAGGTT
TGTCAATTAAATTATAAATTTAATTATAAATTATAAATTTATAAATTTTTAATAAATTAGGTTAG
AGTTTTTAAGTTAAG
Found at i:5839987 original size:110 final size:111
Alignment explanation
Indices: 5839798--5840034 Score: 386
Period size: 110 Copynumber: 2.1 Consensus size: 111
5839788 TTAAGTTAAG
* * *
5839798 GGTTAGGGTTTTTAAGTTAAGGGTTTAAGGTTTAGGGTTTTAAGTTAAGGTTTGTCAATTAAATT
1 GGTTAGGGTTTTTAAGTTAAGGGCTTAAGATTTAAGGTTTTAAGTTAAGGTTTGTCAATTAAATT
* **
5839863 GTAAATTTAATTATATTTTATAAATTTATAAATTTTTAATAAATTA
66 ATAAATTTAATTATAAATTATAAATTTATAAATTTTTAATAAATTA
* *
5839909 GGTTAGGGTTTTTAAGTTAAGGGCTTAAGATTTAAGGTTTT-TGTTAGGGTTTGTCAATTAAATT
1 GGTTAGGGTTTTTAAGTTAAGGGCTTAAGATTTAAGGTTTTAAGTTAAGGTTTGTCAATTAAATT
*
5839973 ATAAATTTATTTATAAATTATAAATTTATAAATTTTTAATAAATTA
66 ATAAATTTAATTATAAATTATAAATTTATAAATTTTTAATAAATTA
5840019 GGTTAGGGTTTTTAAG
1 GGTTAGGGTTTTTAAG
5840035 CTAAAGGTTA
Statistics
Matches: 117, Mismatches: 9, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
110 79 0.68
111 38 0.32
ACGTcount: A:0.34, C:0.01, G:0.18, T:0.47
Consensus pattern (111 bp):
GGTTAGGGTTTTTAAGTTAAGGGCTTAAGATTTAAGGTTTTAAGTTAAGGTTTGTCAATTAAATT
ATAAATTTAATTATAAATTATAAATTTATAAATTTTTAATAAATTA
Found at i:5839998 original size:26 final size:26
Alignment explanation
Indices: 5839967--5840018 Score: 79
Period size: 26 Copynumber: 2.0 Consensus size: 26
5839957 GTTTGTCAAT
*
5839967 TAAA-TTATAAATTTATTTATAAATTA
1 TAAATTTATAAATTT-TTAATAAATTA
5839993 TAAATTTATAAATTTTTAATAAATTA
1 TAAATTTATAAATTTTTAATAAATTA
5840019 GGTTAGGGTT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
26 14 0.58
27 10 0.42
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (26 bp):
TAAATTTATAAATTTTTAATAAATTA
Found at i:5840067 original size:22 final size:21
Alignment explanation
Indices: 5840018--5840072 Score: 83
Period size: 21 Copynumber: 2.6 Consensus size: 21
5840008 TTAATAAATT
5840018 AGGTTAGGGTTTTTAAGCTAA
1 AGGTTAGGGTTTTTAAGCTAA
*
5840039 AGGTTAGGGTTTTTAAGTTAA
1 AGGTTAGGGTTTTTAAGCTAA
*
5840060 GGGCTTAGGGTTT
1 AGG-TTAGGGTTT
5840073 AAGATTTTTG
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
21 22 0.71
22 9 0.29
ACGTcount: A:0.24, C:0.04, G:0.33, T:0.40
Consensus pattern (21 bp):
AGGTTAGGGTTTTTAAGCTAA
Found at i:5840074 original size:131 final size:131
Alignment explanation
Indices: 5839909--5840462 Score: 694
Period size: 131 Copynumber: 4.3 Consensus size: 131
5839899 TAATAAATTA
* *
5839909 GGTTAGGGTTTTTAAGTTAAGGGCTTAAGATTTAAGGTTTTTGTTAGGGTTTGTCAATTAAATTA
1 GGTTAGGGTTTTTAAGTTAAGGGCTTAGGGTTTAAGGTTTTTGTTAGGGTTTGTCAATTAAATTA
*
5839974 TAAATTTATTTATAAATTATAAATTTATAAATTTTTAATAAATTAGGTTAGGGTTTTTAAGCTAA
66 TAAATTTATTTATAAATTATAAATTTATAAATTTTTAATAAATTAGGTTAGGGTTTTTAAGTTAA
*
5840039 A
131 G
* *
5840040 GGTTAGGGTTTTTAAGTTAAGGGCTTAGGGTTTAAGATTTTTGTTCGGGTTTGTCAATTAAATTA
1 GGTTAGGGTTTTTAAGTTAAGGGCTTAGGGTTTAAGGTTTTTGTTAGGGTTTGTCAATTAAATTA
*
5840105 TAAATTTATTTATAATTTATAAATTTATAAATTTTTAATAAATTAGGTTAGGGTTTTTAAGTTAA
66 TAAATTTATTTATAAATTATAAATTTATAAATTTTTAATAAATTAGGTTAGGGTTTTTAAGTTAA
5840170 G
131 G
* * *
5840171 GGCTTAGGTTTTTTAAATT-A------AGGGTTTAGGGTTTTTGTTAGGGTTTGTCAATTAAATT
1 GG-TTAGGGTTTTTAAGTTAAGGGCTTAGGGTTTAAGGTTTTTGTTAGGGTTTGTCAATTAAATT
* * *
5840229 ATAAATATATTTATAAACTATAAATTTATAATTTTTTAATAAATTAGGTTAGGGTTTTTAAGTTA
65 ATAAATTTATTTATAAATTATAAATTTATAAATTTTTAATAAATTAGGTTAGGGTTTTTAAGTTA
5840294 AG
130 AG
* *** ***** **
5840296 GGTTAGGGTTTTTAAGTTAAGGGTTTAGGGATTTTAA-GTTAAAGGTTTAGGGTTTAAGGTTTTT
1 GGTTAGGGTTTTTAAGTTAAGGGCTTAGGG--TTTAAGGTT-TTTG-TTAGGGTTTGTCAATTAA
* *** * ** *
5840360 GTTA-GGGTTTGTCAATTAAATTATAAATTTATAAATTTTTAATAAATTAGGTTAGGATTTTTAA
62 ATTATAAATTTATTTA-TAAATTATAAATTTATAAATTTTTAATAAATTAGGTTAGGGTTTTTAA
5840424 GTTAAG
126 GTTAAG
*
5840430 GGTTAGGGTTTTTAAGTTAATGGCTTAGGGTTT
1 GGTTAGGGTTTTTAAGTTAAGGGCTTAGGGTTT
5840463 TAGGGTAGTA
Statistics
Matches: 368, Mismatches: 42, Indels: 25
0.85 0.10 0.06
Matches are distributed among these distances:
124 14 0.04
125 101 0.27
131 131 0.36
132 20 0.05
133 9 0.02
134 93 0.25
ACGTcount: A:0.31, C:0.02, G:0.20, T:0.46
Consensus pattern (131 bp):
GGTTAGGGTTTTTAAGTTAAGGGCTTAGGGTTTAAGGTTTTTGTTAGGGTTTGTCAATTAAATTA
TAAATTTATTTATAAATTATAAATTTATAAATTTTTAATAAATTAGGTTAGGGTTTTTAAGTTAA
G
Found at i:5840177 original size:22 final size:22
Alignment explanation
Indices: 5840152--5840206 Score: 83
Period size: 22 Copynumber: 2.5 Consensus size: 22
5840142 ATAAATTAGG
*
5840152 TTAGGGTTTTTAAGTTAAGGGC
1 TTAGGGTTTTTAAATTAAGGGC
* *
5840174 TTAGGTTTTTTAAATTAAGGGT
1 TTAGGGTTTTTAAATTAAGGGC
5840196 TTAGGGTTTTT
1 TTAGGGTTTTT
5840207 GTTAGGGTTT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.22, C:0.02, G:0.27, T:0.49
Consensus pattern (22 bp):
TTAGGGTTTTTAAATTAAGGGC
Found at i:5840251 original size:125 final size:124
Alignment explanation
Indices: 5839939--5840463 Score: 631
Period size: 125 Copynumber: 4.1 Consensus size: 124
5839929 GGGCTTAAGA
* *
5839939 TTTAAGGTTTTTGTTAGGGTTTGTCAATTAAATTATAAATTTATTTATAAATTATAAATTTATAA
1 TTTAGGGTTTTTGTTAGGGTTTGTCAATTAAATTATAAATATATTTATAAATTATAAATTTATAA
* *
5840004 ATTTTTAATAAATTAGGTTAGGGTTTTTAAGCTAAAGGTTAGGGTTTTTAAGTTAAGGG
66 ATTTTTAATAAATTAGGTTAGGGTTTTTAAGTTAAGGGTTAGGGTTTTTAAGTTAAGGG
* * * *
5840063 CTTAGGGTTTAAGATTTTTGTTCGGGTTTGTCAATTAAATTATAAATTTATTTATAATTTATAAA
1 TTTA-GG-----G-TTTTTGTTAGGGTTTGTCAATTAAATTATAAATATATTTATAAATTATAAA
* *
5840128 TTTATAAATTTTTAATAAATTAGGTTAGGGTTTTTAAGTTAAGGGCTTAGGTTTTTTAAATTAAG
59 TTTATAAATTTTTAATAAATTAGGTTAGGGTTTTTAAGTTAAGGG-TTAGGGTTTTTAAGTTAAG
5840193 GG
123 GG
*
5840195 TTTAGGGTTTTTGTTAGGGTTTGTCAATTAAATTATAAATATATTTATAAACTATAAATTTATAA
1 TTTAGGGTTTTTGTTAGGGTTTGTCAATTAAATTATAAATATATTTATAAATTATAAATTTATAA
*
5840260 TTTTTTAATAAATTAGGTTAGGGTTTTTAAGTTAAGGGTTAGGGTTTTTAAGTTAAGGG
66 ATTTTTAATAAATTAGGTTAGGGTTTTTAAGTTAAGGGTTAGGGTTTTTAAGTTAAGGG
* * *** * * ***
5840319 TTTAGGGATTTTAAGTTAAAGGTTTAG-GGTTTAAGGTTTTTGTTAGGGT-TTGTCAATTAAATT
1 TTTAGGG-TTTT-TGTT-AGGGTTT-GTCAATTAA-ATTATAAATA---TATT-T--A-TAAATT
*
5840382 ATAAATTTATAAATTTTTAATAAATTAGGTTAGGATTTTTAAGTTAAGGGTTAGGGTTTTTAAGT
54 ATAAATTTATAAATTTTTAATAAATTAGGTTAGGGTTTTTAAGTTAAGGGTTAGGGTTTTTAAGT
*
5840447 TAATGG
119 TAAGGG
*
5840453 CTTAGGGTTTT
1 TTTAGGGTTTT
5840464 AGGGTAGTAA
Statistics
Matches: 350, Mismatches: 31, Indels: 31
0.85 0.08 0.08
Matches are distributed among these distances:
124 29 0.08
125 96 0.27
126 4 0.01
127 10 0.03
128 6 0.02
130 3 0.01
131 96 0.27
132 22 0.06
133 5 0.01
134 79 0.23
ACGTcount: A:0.32, C:0.02, G:0.19, T:0.47
Consensus pattern (124 bp):
TTTAGGGTTTTTGTTAGGGTTTGTCAATTAAATTATAAATATATTTATAAATTATAAATTTATAA
ATTTTTAATAAATTAGGTTAGGGTTTTTAAGTTAAGGGTTAGGGTTTTTAAGTTAAGGG
Found at i:5840289 original size:22 final size:21
Alignment explanation
Indices: 5840261--5840350 Score: 83
Period size: 22 Copynumber: 4.1 Consensus size: 21
5840251 AATTTATAAT
5840261 TTTTTAA-TAAATTAGGTTAGGG
1 TTTTTAAGTAAA--AGGTTAGGG
* *
5840283 TTTTTAAGTTAAGGGTTAGGG
1 TTTTTAAGTAAAAGGTTAGGG
* *
5840304 TTTTTAAGTTAAGGGTTTAGGG
1 TTTTTAAGTAAAAGG-TTAGGG
* *
5840326 ATTTTAAGTTAAAGGTTTAGGG
1 TTTTTAAGTAAAAGG-TTAGGG
5840348 TTT
1 TTT
5840351 AAGGTTTTTG
Statistics
Matches: 61, Mismatches: 5, Indels: 4
0.87 0.07 0.06
Matches are distributed among these distances:
21 23 0.38
22 35 0.57
23 3 0.05
ACGTcount: A:0.27, C:0.00, G:0.28, T:0.46
Consensus pattern (21 bp):
TTTTTAAGTAAAAGGTTAGGG
Found at i:5840299 original size:21 final size:21
Alignment explanation
Indices: 5840275--5840350 Score: 116
Period size: 21 Copynumber: 3.5 Consensus size: 21
5840265 TAATAAATTA
5840275 GGTTAGGGTTTTTAAGTTAAG
1 GGTTAGGGTTTTTAAGTTAAG
5840296 GGTTAGGGTTTTTAAGTTAAG
1 GGTTAGGGTTTTTAAGTTAAG
*
5840317 GGTTTAGGGATTTTAAGTTAAAG
1 GG-TTAGGGTTTTTAAGTT-AAG
*
5840340 GTTTAGGGTTT
1 GGTTAGGGTTT
5840351 AAGGTTTTTG
Statistics
Matches: 50, Mismatches: 3, Indels: 3
0.89 0.05 0.05
Matches are distributed among these distances:
21 23 0.46
22 23 0.46
23 4 0.08
ACGTcount: A:0.24, C:0.00, G:0.33, T:0.43
Consensus pattern (21 bp):
GGTTAGGGTTTTTAAGTTAAG
Found at i:5840310 original size:43 final size:44
Alignment explanation
Indices: 5840261--5840350 Score: 105
Period size: 43 Copynumber: 2.1 Consensus size: 44
5840251 AATTTATAAT
*
5840261 TTTTTAA-TAAATTAGG-TTAGGGTTTTTAAGTT-AAGGGTTAGGG
1 TTTTTAAGTAAA--AGGTTTAGGGATTTTAAGTTAAAGGGTTAGGG
* * *
5840304 TTTTTAAGTTAAGGGTTTAGGGATTTTAAGTTAAAGGTTTAGGG
1 TTTTTAAGTAAAAGGTTTAGGGATTTTAAGTTAAAGGGTTAGGG
5840348 TTT
1 TTT
5840351 AAGGTTTTTG
Statistics
Matches: 40, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
42 2 0.05
43 22 0.55
44 16 0.40
ACGTcount: A:0.27, C:0.00, G:0.28, T:0.46
Consensus pattern (44 bp):
TTTTTAAGTAAAAGGTTTAGGGATTTTAAGTTAAAGGGTTAGGG
Found at i:5840442 original size:22 final size:22
Alignment explanation
Indices: 5840409--5840463 Score: 85
Period size: 21 Copynumber: 2.5 Consensus size: 22
5840399 TAATAAATTA
*
5840409 GGTTAGGATTTTTAAGTTAA-G
1 GGTTAGGGTTTTTAAGTTAATG
5840430 GGTTAGGGTTTTTAAGTTAATG
1 GGTTAGGGTTTTTAAGTTAATG
*
5840452 GCTTAGGGTTTT
1 GGTTAGGGTTTT
5840464 AGGGTAGTAA
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
21 19 0.61
22 12 0.39
ACGTcount: A:0.22, C:0.02, G:0.31, T:0.45
Consensus pattern (22 bp):
GGTTAGGGTTTTTAAGTTAATG
Found at i:5841858 original size:621 final size:620
Alignment explanation
Indices: 5840640--5841875 Score: 2089
Period size: 621 Copynumber: 2.0 Consensus size: 620
5840630 CTTCTGGTAG
* * * *
5840640 GGGTTGTGATTTCTTCGGCGGGGATTCTGGTTCCTCCGATACGACATCTGGTTGTCGGTGTTGGG
1 GGGTTGTGATTGCTCCGGCGGAGATTCTGGTTCCTCCGATACGACATCTGGTTGTCGGTGTTAGG
* *
5840705 ACGATGAACCACCTTGATAGAATAGTGAATGTGGAGGTGTTTGCATCACCAATGGCGACGATGTT
66 ACGATGAACCACCTTGATAGAATAGTGAATGTGGAGGTGTTGGCATCACCAACGGCGACGATGTT
* * *
5840770 TGAAACCCATGCGGTGATGGGATTGGTAAAAAGAAGAGCTCCCCGACGACCCCTCTTACGATCCT
131 TGAAACCCATACGGTGATGGGATTGGTAAAAAGAAGAGCTCCCCAACGACCCCTCTTACGATCCC
*
5840835 TCGTGCGACGCCGGCCTATACATCGATGGTCCACTCGGCATAACAGAAAATGGAGATAAACCGGG
196 TCGTGCGACGCCGGCCTATACATCGACGGTCCACTCGGCATAACAGAAAATGGAGATAAACCGGG
* * *
5840900 TCATTGGCTCTAACTTGCCATAGGACTCGAAAAAGGAAACATATAAGGGTTAGGATATATAAAAA
261 CCATTGGCTCTAACCTGCCATAGGACTCAAAAAAGGAAACATATAAGGGTTAGGATATATAAAAA
* *
5840965 GGCTAGGATACGCACCTAACATCATCGAAAAAGGCTGTGTTGTGGGTATCATTGGTTGAACTACT
326 GGCTAGGATACGCACCTAACATCATCAAAAAAGGCTGTGTCGTGGGTATCATTGGTTGAACTACT
5841030 GGGTCGGGTGACTGTGTCGGTGCTCTCGCTGAGCCTGGTGATTGAATGGCCGCTAATGATGGGCA
391 GGGTCGGGTGACTGTGTCGGTGCTCTCGCTGAGCCTGGTGATTGAATGGCCGCTAATGATGGGCA
* *
5841095 GGGTAAATGTTTGGGCCACGTTGATGGGCCTGCGTCGTCGTCTCTTCGTCTTGGATTTAAAGGCC
456 GGGTAAATGTTTGGGCCACGTTGATGGGCCTGCGTCGTCGTCCCTTCATCTTGGATTTAAAGGCC
*
5841160 CACGTTGTTCCCTTTGGACACGTAATTGCCGCTGCCTCTCCTCTACCGACAATAAATACAGCTTG
521 CACGTCGTTCCCTTTGGACACGTAATTGCCGCTGCCTCTCCTCTACCGACAATAAATACAGCTTG
*
5841225 CCATGTATCCTACACCATGGCATGTATTCCGGTGA
586 CCATGGATCCTACACCATGGCATGTATTCCGGTGA
*
5841260 GGGTTGTGATTGCTCCGGCGGAGATTCTGGTTTCCTCCGGTACTG-CATCTGGTTGTCGGTGTTA
1 GGGTTGTGATTGCTCCGGCGGAGATTCTGG-TTCCTCCGATAC-GACATCTGGTTGTCGGTGTTA
5841324 GGACGATGAACCACCTTGATAGAATAGTGAATGTGGAGGTGTTGGCATCACCAACGGCGACGATG
64 GGACGATGAACCACCTTGATAGAATAGTGAATGTGGAGGTGTTGGCATCACCAACGGCGACGATG
*
5841389 TTTGAAACCCATACGGTGATGGGGATTGGTAAAAAGAAGAGCTCCCCAACGA-CCCTCTTGCGAT
129 TTTGAAACCCATACGGTGAT-GGGATTGGTAAAAAGAAGAGCTCCCCAACGACCCCTCTTACGAT
* * *
5841453 CCCTCGTGCGACGCTGGCCTATACATCGGCGGTCCACTCGGCATAACAGAAAATGGAGATGAACC
193 CCCTCGTGCGACGCCGGCCTATACATCGACGGTCCACTCGGCATAACAGAAAATGGAGATAAACC
5841518 GGGCCATTGGCTCTAACCTGCCATAGGACTCAAAAAAGGAAACATATAAGGGTTAGGATATATAA
258 GGGCCATTGGCTCTAACCTGCCATAGGACTCAAAAAAGGAAACATATAAGGGTTAGGATATATAA
** *
5841583 AAAGGCTAGGATACGCACCTGGCATCATCAAAAAAGGCTGTGTCGTGGGTATCGTTGGTTGAACT
323 AAAGGCTAGGATACGCACCTAACATCATCAAAAAAGGCTGTGTCGTGGGTATCATTGGTTGAACT
* * *
5841648 GCTGGGTCGGGTGACTGTGTCGGTGCTCTCGCTGGGCCTGGTGATTGAATGGCCGCTGATGATGG
388 ACTGGGTCGGGTGACTGTGTCGGTGCTCTCGCTGAGCCTGGTGATTGAATGGCCGCTAATGATGG
* * * *
5841713 GCCGGGTGAATGTTTGGGCCTCGTTGATGGGCCTGCGTCGTTGTCCCTTCATCTTGGATTTAAAG
453 GCAGGGTAAATGTTTGGGCCACGTTGATGGGCCTGCGTCGTCGTCCCTTCATCTTGGATTTAAAG
* * *
5841778 GCCCACGTCGTTCCCTTTGGACACGTAATTGCCGCTGCCTCTCCTCTACTGACAGTAAATACGGC
518 GCCCACGTCGTTCCCTTTGGACACGTAATTGCCGCTGCCTCTCCTCTACCGACAATAAATACAGC
*
5841843 TTTCCATGGATCCTACACCATGGCATGTATTCC
583 TTGCCATGGATCCTACACCATGGCATGTATTCC
5841876 AGCACGCACG
Statistics
Matches: 575, Mismatches: 38, Indels: 5
0.93 0.06 0.01
Matches are distributed among these distances:
620 27 0.05
621 517 0.90
622 31 0.05
ACGTcount: A:0.23, C:0.23, G:0.28, T:0.26
Consensus pattern (620 bp):
GGGTTGTGATTGCTCCGGCGGAGATTCTGGTTCCTCCGATACGACATCTGGTTGTCGGTGTTAGG
ACGATGAACCACCTTGATAGAATAGTGAATGTGGAGGTGTTGGCATCACCAACGGCGACGATGTT
TGAAACCCATACGGTGATGGGATTGGTAAAAAGAAGAGCTCCCCAACGACCCCTCTTACGATCCC
TCGTGCGACGCCGGCCTATACATCGACGGTCCACTCGGCATAACAGAAAATGGAGATAAACCGGG
CCATTGGCTCTAACCTGCCATAGGACTCAAAAAAGGAAACATATAAGGGTTAGGATATATAAAAA
GGCTAGGATACGCACCTAACATCATCAAAAAAGGCTGTGTCGTGGGTATCATTGGTTGAACTACT
GGGTCGGGTGACTGTGTCGGTGCTCTCGCTGAGCCTGGTGATTGAATGGCCGCTAATGATGGGCA
GGGTAAATGTTTGGGCCACGTTGATGGGCCTGCGTCGTCGTCCCTTCATCTTGGATTTAAAGGCC
CACGTCGTTCCCTTTGGACACGTAATTGCCGCTGCCTCTCCTCTACCGACAATAAATACAGCTTG
CCATGGATCCTACACCATGGCATGTATTCCGGTGA
Found at i:5842254 original size:7 final size:7
Alignment explanation
Indices: 5842244--5842268 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
5842234 TTATATACAT
5842244 AATACTA
1 AATACTA
5842251 AATACTA
1 AATACTA
5842258 AATACTA
1 AATACTA
5842265 AATA
1 AATA
5842269 TCAATCGACT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.60, C:0.12, G:0.00, T:0.28
Consensus pattern (7 bp):
AATACTA
Found at i:5843500 original size:22 final size:22
Alignment explanation
Indices: 5843475--5843534 Score: 63
Period size: 22 Copynumber: 2.7 Consensus size: 22
5843465 TATGGATTTA
5843475 AGAGAAATTTG-GAAGGAAATTG
1 AGAGAAATTTGAG-AGGAAATTG
5843497 AGAGCAAA-TTGAGAGGAAATTG
1 AGAG-AAATTTGAGAGGAAATTG
5843519 AGA-AAATAATTGAGAG
1 AGAGAAAT--TTGAGAG
5843535 AGGATTAGTT
Statistics
Matches: 33, Mismatches: 0, Indels: 9
0.79 0.00 0.21
Matches are distributed among these distances:
20 3 0.09
22 19 0.58
23 11 0.33
ACGTcount: A:0.48, C:0.02, G:0.30, T:0.20
Consensus pattern (22 bp):
AGAGAAATTTGAGAGGAAATTG
Found at i:5843507 original size:11 final size:11
Alignment explanation
Indices: 5843491--5843521 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
5843481 ATTTGGAAGG
5843491 AAATTGAGAGC
1 AAATTGAGAGC
*
5843502 AAATTGAGAGG
1 AAATTGAGAGC
5843513 AAATTGAGA
1 AAATTGAGA
5843522 AAATAATTGA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.48, C:0.03, G:0.29, T:0.19
Consensus pattern (11 bp):
AAATTGAGAGC
Found at i:5857146 original size:18 final size:18
Alignment explanation
Indices: 5857123--5857163 Score: 64
Period size: 18 Copynumber: 2.3 Consensus size: 18
5857113 ACACAAATCA
*
5857123 CAAAGATGCGAGTTCACC
1 CAAAGATGAGAGTTCACC
*
5857141 CAAAGATGAGAGTTCATC
1 CAAAGATGAGAGTTCACC
5857159 CAAAG
1 CAAAG
5857164 CTACGAGCTC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.39, C:0.22, G:0.22, T:0.17
Consensus pattern (18 bp):
CAAAGATGAGAGTTCACC
Found at i:5858055 original size:12 final size:13
Alignment explanation
Indices: 5858024--5858056 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
5858014 TAATACATCA
*
5858024 AAAATATTAAAAT
1 AAAATGTTAAAAT
5858037 AAAATGTTAAAAT
1 AAAATGTTAAAAT
5858050 -AAATGTT
1 AAAATGTT
5858057 TTCCAATAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 7 0.37
13 12 0.63
ACGTcount: A:0.61, C:0.00, G:0.06, T:0.33
Consensus pattern (13 bp):
AAAATGTTAAAAT
Found at i:5858217 original size:22 final size:22
Alignment explanation
Indices: 5858167--5858220 Score: 63
Period size: 22 Copynumber: 2.5 Consensus size: 22
5858157 TCCAAATAAT
* * * *
5858167 AACAACAAAATAGTAGCAATAT
1 AACAGCAAAATAGTAACAAAAC
*
5858189 AATAGCAAAATAGTAACAAAAC
1 AACAGCAAAATAGTAACAAAAC
5858211 AACAGCAAAA
1 AACAGCAAAA
5858221 CAACTTAATC
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.63, C:0.15, G:0.09, T:0.13
Consensus pattern (22 bp):
AACAGCAAAATAGTAACAAAAC
Found at i:5866436 original size:63 final size:64
Alignment explanation
Indices: 5866304--5866436 Score: 155
Period size: 63 Copynumber: 2.1 Consensus size: 64
5866294 ACCGTGTGGT
* * * * * * *
5866304 AGGCCATGTAACTCACTGTTTTCCATTAAGGGCCACACAGGCCAGCGACATGGGTGTATGTCGC
1 AGGCCGTGTAACTCACTATTTGCCATTAAGGACCACACAGGCCAGCAACACGGGCGTATGTCGC
* *
5866368 A-GCCGTGTGACTCACTATTTGCCATTAAGGACCACAC-GAGCCAGCAACACGGGCGTGTGTC-C
1 AGGCCGTGTAACTCACTATTTGCCATTAAGGACCACACAG-GCCAGCAACACGGGCGTATGTCGC
5866430 AGGCCGT
1 AGGCCGT
5866437 ATGTAACACC
Statistics
Matches: 58, Mismatches: 9, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
62 3 0.05
63 54 0.93
64 1 0.02
ACGTcount: A:0.23, C:0.29, G:0.27, T:0.21
Consensus pattern (64 bp):
AGGCCGTGTAACTCACTATTTGCCATTAAGGACCACACAGGCCAGCAACACGGGCGTATGTCGC
Found at i:5869534 original size:3 final size:3
Alignment explanation
Indices: 5869528--5869555 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
5869518 ATGGAAAAAG
5869528 GAT GAT GAT GAT GAT GAT GAT GAT GAT G
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT G
5869556 GGAAAGGTGA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.32, C:0.00, G:0.36, T:0.32
Consensus pattern (3 bp):
GAT
Found at i:5870304 original size:3 final size:3
Alignment explanation
Indices: 5870296--5870335 Score: 80
Period size: 3 Copynumber: 13.3 Consensus size: 3
5870286 ATTAAATACA
5870296 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
5870336 GTAAGGGAAA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:5877827 original size:7 final size:7
Alignment explanation
Indices: 5877798--5877827 Score: 51
Period size: 7 Copynumber: 4.3 Consensus size: 7
5877788 TCATTTGGGC
5877798 TTCTTTT
1 TTCTTTT
*
5877805 TTCCTTT
1 TTCTTTT
5877812 TTCTTTT
1 TTCTTTT
5877819 TTCTTTT
1 TTCTTTT
5877826 TT
1 TT
5877828 ATTTCTATTG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (7 bp):
TTCTTTT
Found at i:5881582 original size:33 final size:35
Alignment explanation
Indices: 5881520--5881587 Score: 104
Period size: 33 Copynumber: 2.0 Consensus size: 35
5881510 GGTGCAAGCC
*
5881520 CTATTGAATAAGTAGTGTCTTATTGTGTCAAGTTGG
1 CTATTGAATAAG-AGTGTCCTATTGTGTCAAGTTGG
5881556 CTATTGAATAA-A-TGTCCTATTGTGTCAAGTTG
1 CTATTGAATAAGAGTGTCCTATTGTGTCAAGTTG
5881588 ATCGTAAGAT
Statistics
Matches: 31, Mismatches: 1, Indels: 3
0.89 0.03 0.09
Matches are distributed among these distances:
33 19 0.61
34 1 0.03
36 11 0.35
ACGTcount: A:0.26, C:0.10, G:0.22, T:0.41
Consensus pattern (35 bp):
CTATTGAATAAGAGTGTCCTATTGTGTCAAGTTGG
Found at i:5882403 original size:8 final size:7
Alignment explanation
Indices: 5882390--5882435 Score: 53
Period size: 6 Copynumber: 6.7 Consensus size: 7
5882380 ATTAAATTAT
5882390 TTTTAGA
1 TTTTAGA
5882397 CTTTTAGA
1 -TTTTAGA
5882405 TTTTAG-
1 TTTTAGA
5882411 TTTTAG-
1 TTTTAGA
5882417 TTTTA-A
1 TTTTAGA
5882423 TTTTAGAA
1 TTTTAG-A
5882431 TTTTA
1 TTTTA
5882436 TTTTTATTTA
Statistics
Matches: 35, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
6 16 0.46
7 6 0.17
8 13 0.37
ACGTcount: A:0.26, C:0.02, G:0.11, T:0.61
Consensus pattern (7 bp):
TTTTAGA
Found at i:5882426 original size:12 final size:13
Alignment explanation
Indices: 5882398--5882441 Score: 54
Period size: 12 Copynumber: 3.4 Consensus size: 13
5882388 ATTTTTAGAC
*
5882398 TTTTAGATTTTAG
1 TTTTAGATTTTAA
5882411 TTTTAG-TTTTAA
1 TTTTAGATTTTAA
*
5882423 TTTTAGAATTTTAT
1 TTTTAG-ATTTTAA
5882437 TTTTA
1 TTTTA
5882442 TTTATTAAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
12 11 0.41
13 6 0.22
14 10 0.37
ACGTcount: A:0.25, C:0.00, G:0.09, T:0.66
Consensus pattern (13 bp):
TTTTAGATTTTAA
Found at i:5882452 original size:20 final size:20
Alignment explanation
Indices: 5882398--5882441 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 20
5882388 ATTTTTAGAC
5882398 TTTTAGATTTTAG--TTTTAG
1 TTTTA-ATTTTAGAATTTTAG
*
5882417 TTTTAATTTTAGAATTTTAT
1 TTTTAATTTTAGAATTTTAG
5882437 TTTTA
1 TTTTA
5882442 TTTATTAAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
18 7 0.32
19 5 0.23
20 10 0.45
ACGTcount: A:0.25, C:0.00, G:0.09, T:0.66
Consensus pattern (20 bp):
TTTTAATTTTAGAATTTTAG
Found at i:5883219 original size:16 final size:16
Alignment explanation
Indices: 5883186--5883219 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
5883176 AATCGAATCT
*
5883186 AAACTTAAATAATTAA
1 AAACTTAAATAATCAA
*
5883202 AAACTTAAATTATCAA
1 AAACTTAAATAATCAA
5883218 AA
1 AA
5883220 TTCAAAATGA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.62, C:0.09, G:0.00, T:0.29
Consensus pattern (16 bp):
AAACTTAAATAATCAA
Found at i:5884241 original size:13 final size:13
Alignment explanation
Indices: 5884223--5884256 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
5884213 TTTCGAGGGG
5884223 GAAAAAGGAAAAA
1 GAAAAAGGAAAAA
*
5884236 GAAAAAAGAAAAA
1 GAAAAAGGAAAAA
*
5884249 AAAAAAGG
1 GAAAAAGG
5884257 TTATGGTCTT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (13 bp):
GAAAAAGGAAAAA
Found at i:5888619 original size:44 final size:43
Alignment explanation
Indices: 5888555--5888641 Score: 120
Period size: 44 Copynumber: 2.0 Consensus size: 43
5888545 TGGTCGTGTG
* *
5888555 ACCAAACCGTGTACAGTTCGAAATTAGAGTCACACGACCATGTC
1 ACCAAACCATGTACAATTCGAAA-TAGAGTCACACGACCATGTC
* * *
5888599 ACCAAACCATGTGCAATTCGAAATAGGGTCACACGGCCATGTC
1 ACCAAACCATGTACAATTCGAAATAGAGTCACACGACCATGTC
5888642 GCAGACTGTG
Statistics
Matches: 38, Mismatches: 5, Indels: 1
0.86 0.11 0.02
Matches are distributed among these distances:
43 18 0.47
44 20 0.53
ACGTcount: A:0.33, C:0.28, G:0.20, T:0.20
Consensus pattern (43 bp):
ACCAAACCATGTACAATTCGAAATAGAGTCACACGACCATGTC
Found at i:5890969 original size:3 final size:3
Alignment explanation
Indices: 5890961--5891005 Score: 90
Period size: 3 Copynumber: 15.0 Consensus size: 3
5890951 ACAAATGTCA
5890961 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
5891006 ATACACATAC
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 42 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:5891284 original size:18 final size:19
Alignment explanation
Indices: 5891234--5891284 Score: 52
Period size: 18 Copynumber: 2.7 Consensus size: 19
5891224 AATTTTAAAA
*
5891234 TATGTACATACATATATTT
1 TATGTATATACATATATTT
* *
5891253 T-TCGTATTTCCATA-ATTT
1 TAT-GTATATACATATATTT
5891271 TATGTATATACATA
1 TATGTATATACATA
5891285 CATATATATT
Statistics
Matches: 25, Mismatches: 5, Indels: 5
0.71 0.14 0.14
Matches are distributed among these distances:
18 15 0.60
19 10 0.40
ACGTcount: A:0.33, C:0.12, G:0.06, T:0.49
Consensus pattern (19 bp):
TATGTATATACATATATTT
Found at i:5891500 original size:23 final size:20
Alignment explanation
Indices: 5891471--5891523 Score: 61
Period size: 21 Copynumber: 2.4 Consensus size: 20
5891461 GTTTTTTTGC
5891471 TCATATTATTTTTGGTCACATTA
1 TCATATTATTTTT--TC-CATTA
5891494 TCATATTTATTTTTTCCATTA
1 TCATA-TTATTTTTTCCATTA
5891515 TGCATATTA
1 T-CATATTA
5891524 ACACCACAGT
Statistics
Matches: 28, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
21 9 0.32
22 6 0.21
23 5 0.18
24 8 0.29
ACGTcount: A:0.26, C:0.13, G:0.06, T:0.55
Consensus pattern (20 bp):
TCATATTATTTTTTCCATTA
Found at i:5891503 original size:24 final size:21
Alignment explanation
Indices: 5891471--5891522 Score: 61
Period size: 22 Copynumber: 2.3 Consensus size: 21
5891461 GTTTTTTTGC
5891471 TCATA-TTATTTTTGGTCACATTA
1 TCATATTTATTTTT--TC-CATTA
5891494 TCATATTTATTTTTTCCATTA
1 TCATATTTATTTTTTCCATTA
5891515 TGCATATT
1 T-CATATT
5891523 AACACCACAG
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
21 6 0.22
22 8 0.30
23 5 0.19
24 8 0.30
ACGTcount: A:0.25, C:0.13, G:0.06, T:0.56
Consensus pattern (21 bp):
TCATATTTATTTTTTCCATTA
Found at i:5891741 original size:111 final size:110
Alignment explanation
Indices: 5891549--5891979 Score: 553
Period size: 111 Copynumber: 3.9 Consensus size: 110
5891539 AAAGAAAATT
* * * * * *
5891549 TTTCTAAATGAGGCAATATTTAGCATTTGGAAATTCGAGAAAACGTGCCCTAAGGTGCTGGGTGT
1 TTTCAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTGT
* * **
5891614 CGATTTTTCTCGTTCAACCAAATGGCTTAATATCCTTTTAAAATT
66 CGATTTTTCTCATTCAACCAAATGGCTAAATATCCTTTTAAAAAA
* *
5891659 TTTTAAAATAAGGCAATGTTTTGCGTTTGGGAAATTTGAGAAAACATGCCCTAAGGTGCTGGGTG
1 TTTCAAAATAAGGCAATGTTTTGCGTTT-GGAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTG
*
5891724 CCGATTTTTCTCATTCAACCAAATGGCTAAATATCCTTTTAAAAAA
65 TCGATTTTTCTCATTCAACCAAATGGCTAAATATCCTTTTAAAAAA
* * *
5891770 TTTCAAAATAGGGCAATGTTTTGCGTTTGAGAAATTCGAGAAAACATGTCATAAGGTGCTGGGTG
1 TTTCAAAATAAGGCAATGTTTTGCGTTTG-GAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTG
*
5891835 TTGATTTTTCTCATTCAACCAAATGGCTAAATATCCTTTTAAAAAAA
65 TCGATTTTTCTCATTCAACCAAATGGCTAAATATCCTTTT-AAAAAA
* * * * * *
5891882 TTTCAAAATAAGGCAATGTTTTGTGTTTGAAAATTTGAG-GAACGTACCCTAAGGTGCTGGGT-T
1 TTTCAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTGT
* * * * * *
5891945 CCA-ATTTCTCGTTTAACCAAATAGCCAAATATCCT
66 CGATTTTTCTCATTCAACCAAATGGCTAAATATCCT
5891980 CTCGAATTTC
Statistics
Matches: 282, Mismatches: 36, Indels: 8
0.87 0.11 0.02
Matches are distributed among these distances:
108 27 0.10
109 2 0.01
110 41 0.15
111 179 0.63
112 33 0.12
ACGTcount: A:0.32, C:0.16, G:0.19, T:0.34
Consensus pattern (110 bp):
TTTCAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTGT
CGATTTTTCTCATTCAACCAAATGGCTAAATATCCTTTTAAAAAA
Found at i:5907066 original size:76 final size:76
Alignment explanation
Indices: 5906940--5907090 Score: 221
Period size: 76 Copynumber: 2.0 Consensus size: 76
5906930 CAAAAATGTG
* * * * * *
5906940 ACCTTGATCGGAGGCTCTCCCCCTTGTACAGAACAAGGTGAACTAGACATCCTCACCATTCTCTT
1 ACCTTGATCAGAGGCTCTCCACCTTGTACAGAACAAGGTGAACCACACATCCTCACCATCCTCTC
5907005 TGCCTTTTTCC
66 TGCCTTTTTCC
* *
5907016 ACCTTGATCAGAGGCTCTCCACCTTTTCCAGAACAAGGTGAACCACACATCCTCACCATCCTCTC
1 ACCTTGATCAGAGGCTCTCCACCTTGTACAGAACAAGGTGAACCACACATCCTCACCATCCTCTC
*
5907081 TGTCTTTTTC
66 TGCCTTTTTC
5907091 GGTTAACCCA
Statistics
Matches: 66, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
76 66 1.00
ACGTcount: A:0.22, C:0.34, G:0.14, T:0.30
Consensus pattern (76 bp):
ACCTTGATCAGAGGCTCTCCACCTTGTACAGAACAAGGTGAACCACACATCCTCACCATCCTCTC
TGCCTTTTTCC
Found at i:5908790 original size:10 final size:10
Alignment explanation
Indices: 5908775--5908799 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
5908765 ATTCATATTT
5908775 TATAATCATA
1 TATAATCATA
5908785 TATAATCATA
1 TATAATCATA
5908795 TATAA
1 TATAA
5908800 CCTTTTTACT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.52, C:0.08, G:0.00, T:0.40
Consensus pattern (10 bp):
TATAATCATA
Found at i:5909333 original size:19 final size:22
Alignment explanation
Indices: 5909295--5909336 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 22
5909285 GTTAAGATGT
5909295 AAAAATAAATATTTTATATATA
1 AAAAATAAATATTTTATATATA
*
5909317 AAAAAT-AATTTTTTATATAT
1 AAAAATAAATATTTTATATAT
5909337 TTTTATTTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 13 0.68
22 6 0.32
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (22 bp):
AAAAATAAATATTTTATATATA
Found at i:5909359 original size:19 final size:17
Alignment explanation
Indices: 5909324--5909357 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
5909314 ATAAAAAATA
5909324 ATTTTTTATATATTTTT
1 ATTTTTTATATATTTTT
5909341 ATTTTTTATATATTTTT
1 ATTTTTTATATATTTTT
5909358 TTCTAAAAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (17 bp):
ATTTTTTATATATTTTT
Found at i:5918644 original size:14 final size:14
Alignment explanation
Indices: 5918625--5918668 Score: 56
Period size: 14 Copynumber: 3.3 Consensus size: 14
5918615 AAATACATCC
5918625 AAATCATTACCAAT
1 AAATCATTACCAAT
*
5918639 AAATCA-TA-CAAA
1 AAATCATTACCAAT
*
5918651 AAATAATTACCAAT
1 AAATCATTACCAAT
5918665 AAAT
1 AAAT
5918669 ATAATTTATC
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
12 8 0.32
13 4 0.16
14 13 0.52
ACGTcount: A:0.59, C:0.16, G:0.00, T:0.25
Consensus pattern (14 bp):
AAATCATTACCAAT
Found at i:5924025 original size:9 final size:10
Alignment explanation
Indices: 5924005--5924030 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
5923995 AAAGTATTTT
5924005 AAAATTTAAA
1 AAAATTTAAA
5924015 AAAATTTAAA
1 AAAATTTAAA
5924025 AAAATT
1 AAAATT
5924031 ATTTTAAAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (10 bp):
AAAATTTAAA
Found at i:5924027 original size:31 final size:30
Alignment explanation
Indices: 5923966--5924047 Score: 110
Period size: 31 Copynumber: 2.6 Consensus size: 30
5923956 ACCAAAAATT
5923966 TATTTTAAAAATTAAAATTAAAATTAAAAAAAG
1 TATTTT-AAAATTAAAA--AAAATTAAAAAAAG
* *
5923999 TATTTTAAAATTTAAAAAAATTTAAAAAAAT
1 TATTTTAAAA-TTAAAAAAAATTAAAAAAAG
5924030 TATTTTAAAATTAAAAAA
1 TATTTTAAAATTAAAAAA
5924048 TATATATTTA
Statistics
Matches: 46, Mismatches: 2, Indels: 5
0.87 0.04 0.09
Matches are distributed among these distances:
30 8 0.17
31 22 0.48
32 4 0.09
33 12 0.26
ACGTcount: A:0.62, C:0.00, G:0.01, T:0.37
Consensus pattern (30 bp):
TATTTTAAAATTAAAAAAAATTAAAAAAAG
Found at i:5924335 original size:50 final size:49
Alignment explanation
Indices: 5924273--5924388 Score: 124
Period size: 50 Copynumber: 2.3 Consensus size: 49
5924263 CTAAATTTTT
** * * * *
5924273 TTTTCGTGTACTGGTTTCTGCTATTGACAAGCCAGCACTCAAAAAAAATC
1 TTTTCGTGTACTGGTGCCGGCCATTGAAAAGCCAACAC-CAAAAAAAATC
* **
5924323 TTTTCGTTTACTGGTGCCGGCCATTGAAAAGCCAACACCAAAAAAAAAA
1 TTTTCGTGTACTGGTGCCGGCCATTGAAAAGCCAACACCAAAAAAAATC
* *
5924372 ATTCCGTGTACTGGTGC
1 TTTTCGTGTACTGGTGC
5924389 TGGCTTTAGA
Statistics
Matches: 54, Mismatches: 12, Indels: 1
0.81 0.18 0.01
Matches are distributed among these distances:
49 23 0.43
50 31 0.57
ACGTcount: A:0.31, C:0.22, G:0.18, T:0.28
Consensus pattern (49 bp):
TTTTCGTGTACTGGTGCCGGCCATTGAAAAGCCAACACCAAAAAAAATC
Found at i:5924923 original size:200 final size:200
Alignment explanation
Indices: 5924575--5924980 Score: 659
Period size: 200 Copynumber: 2.0 Consensus size: 200
5924565 AGCGAAACTG
* * *
5924575 AAACTTTGATACCTTTGAGCTATGCTTTTGAGTTTTACGGGTTCTATATCTTTTGTTTACTAAGT
1 AAAC-TTGATACCTTTGAGCTATGCTGTTGAGTGTTACGGGTTCTATATCTTTTGTTCACTAAGT
* *
5924640 TGGGAAAATATGATCATCCTTGTCTTTTTAGTTTTTCGAAACTCAAAACACTCCCACTACCTACT
65 TGGGAAAATATGATCATACTTGTCTTTTTAGTCTTTCGAAACTCAAAACACTCCCACTACCTACT
*
5924705 CTTTCTTTGGCTTTTATATTTTCTTCTTTCTTTTACACCTTAAAGCCTAAGAGTCTTACAAAAAT
130 CTTTCTTTGACTTTTATATTTTCTTCTTTCTTTTACACCTTAAAGCCTAAGAGTCTTACAAAAAT
*
5924770 TGCTTA
195 GGCTTA
5924776 AAACTTGATACCTTTGAGCTATGCTGTTGAGTGTTACGGGTTCTATATCTTTTGTTCACTAAGTT
1 AAACTTGATACCTTTGAGCTATGCTGTTGAGTGTTACGGGTTCTATATCTTTTGTTCACTAAGTT
* * *
5924841 GGGAAAATATGATCATACTTGTTTTTTTAGTCTTTCGAAACTTAAAACACTCTCACTACCTACTC
66 GGGAAAATATGATCATACTTGTCTTTTTAGTCTTTCGAAACTCAAAACACTCCCACTACCTACTC
* * * * * *
5924906 TTTCTTTTACTTTTATATTTTCTTCTTTTTTTTACACCTTAAAGCCTGAGAGTTTTATAAGAATG
131 TTTCTTTGACTTTTATATTTTCTTCTTTCTTTTACACCTTAAAGCCTAAGAGTCTTACAAAAATG
5924971 GCTTA
196 GCTTA
5924976 AAACT
1 AAACT
5924981 GTTAAAATAA
Statistics
Matches: 189, Mismatches: 16, Indels: 1
0.92 0.08 0.00
Matches are distributed among these distances:
200 185 0.98
201 4 0.02
ACGTcount: A:0.25, C:0.18, G:0.13, T:0.44
Consensus pattern (200 bp):
AAACTTGATACCTTTGAGCTATGCTGTTGAGTGTTACGGGTTCTATATCTTTTGTTCACTAAGTT
GGGAAAATATGATCATACTTGTCTTTTTAGTCTTTCGAAACTCAAAACACTCCCACTACCTACTC
TTTCTTTGACTTTTATATTTTCTTCTTTCTTTTACACCTTAAAGCCTAAGAGTCTTACAAAAATG
GCTTA
Found at i:5925128 original size:47 final size:47
Alignment explanation
Indices: 5925067--5925157 Score: 146
Period size: 47 Copynumber: 1.9 Consensus size: 47
5925057 CCTAAATTTT
*
5925067 TTTCGTGTACTGGTTTAGGCAATTGATAGGCCAGCACTAAAAAAAAG
1 TTTCATGTACTGGTTTAGGCAATTGATAGGCCAGCACTAAAAAAAAG
** *
5925114 TTTCATGTACTGGTTTCTGCAATTGATAGGCCAGCACTCAAAAA
1 TTTCATGTACTGGTTTAGGCAATTGATAGGCCAGCACTAAAAAA
5925158 TAAAATTTTC
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
47 40 1.00
ACGTcount: A:0.32, C:0.18, G:0.21, T:0.30
Consensus pattern (47 bp):
TTTCATGTACTGGTTTAGGCAATTGATAGGCCAGCACTAAAAAAAAG
Found at i:5925730 original size:49 final size:48
Alignment explanation
Indices: 5925631--5925783 Score: 126
Period size: 49 Copynumber: 3.1 Consensus size: 48
5925621 GTAATAATAA
*
5925631 TGACACGCCAGCACCCAAATTTTTTTTTCATGTACTGGTGCCACCCAT
1 TGACAAGCCAGCACCCAAATTTTTTTTTCATGTACTGGTGCCACCCAT
** * * ** ** *
5925679 TGACTGGCCAGCACCTAAATTTTTTATTTCGTGTACTGGTTTCTGCTAT
1 TGACAAGCCAGCACCCAAATTTTTT-TTTCATGTACTGGTGCCACCCAT
* * * * * *
5925728 TGACAAGCCAGCACTCAAAAAAATTTATTTTCGTTTACTGGTGCCAGCCAT
1 TGACAAGCCAGCAC-C--CAAATTTTTTTTTCATGTACTGGTGCCACCCAT
5925779 TGACA
1 TGACA
5925784 GGCAATCACC
Statistics
Matches: 82, Mismatches: 19, Indels: 5
0.77 0.18 0.05
Matches are distributed among these distances:
48 22 0.27
49 29 0.35
50 1 0.01
51 23 0.28
52 7 0.09
ACGTcount: A:0.25, C:0.25, G:0.16, T:0.34
Consensus pattern (48 bp):
TGACAAGCCAGCACCCAAATTTTTTTTTCATGTACTGGTGCCACCCAT
Found at i:5925781 original size:51 final size:50
Alignment explanation
Indices: 5925655--5925823 Score: 160
Period size: 51 Copynumber: 3.3 Consensus size: 50
5925645 CCAAATTTTT
* * * * ***
5925655 TTTTCATGTACTGGTGCCACCCATTGACTGGCCAGCACCTAAATTTTTTA
1 TTTTCGTGTACTGGTGCCAGCCATTGACAGGCCAGCACCAAAAAAATTTA
** * * *
5925705 -TTTCGTGTACTGGTTTCTGCTATTGACAAGCCAGCACTCAAAAAAATTTA
1 TTTTCGTGTACTGGTGCCAGCCATTGACAGGCCAGCAC-CAAAAAAATTTA
* * * *
5925755 TTTTCGTTTACTGGTGCCAGCCATTGACAGGCAATCACCAAAAAAATATTT
1 TTTTCGTGTACTGGTGCCAGCCATTGACAGGCCAGCACCAAAAAAAT-TTA
5925806 TTTTCCGTGTACTGGTGC
1 TTTT-CGTGTACTGGTGC
5925824 TGGCTTTAGA
Statistics
Matches: 93, Mismatches: 22, Indels: 6
0.77 0.18 0.05
Matches are distributed among these distances:
49 29 0.31
50 17 0.18
51 35 0.38
52 12 0.13
ACGTcount: A:0.25, C:0.22, G:0.17, T:0.35
Consensus pattern (50 bp):
TTTTCGTGTACTGGTGCCAGCCATTGACAGGCCAGCACCAAAAAAATTTA
Found at i:5925907 original size:592 final size:589
Alignment explanation
Indices: 5925114--5933762 Score: 12022
Period size: 593 Copynumber: 14.6 Consensus size: 589
5925104 TAAAAAAAAG
* * * * *
5925114 TTTCATGTACTGGTTTCTGCAATTGATAGGCCAGCACTCAAAAATAAA--ATTTTC-TTTACTGG
1 TTTCGTGTACTGGTTTCTGCTATTGACAAGCCAGCACTCAAAAA-AAATTCTTTTCGTTTACTGG
* * ** * * * * * *
5925176 TACCGGTCATCCACAGGCCAGCACCAAAAAAAAAGTTTTTTTTCGTGTACTAGTGTTGGCTTTAG
65 TGCCGGCCATTGACAGGCAATCACCAAAAAAATA-TTTTTTTCCGTGTACTGGTGCTGGCTTTAG
* * * * *
5925241 AATATGTAATGTTAAATAAAATTTAGAGACTTTTGATGAACGTTACCTTAAATTAGTAATTTTAA
129 AATATGTAATGTTAAATAAAATTTTGGGACTGTTGATGAACTTTACCTTAAATTAGTAATTTCAA
* *
5925306 TTAAATCAGATTTTCTATTTTTAGTTCATACAGTTACGACAGTGAACAAAAAACAGAGACAATGA
194 TTAAATCAGATTTTCTATTTTTAGTTCATACAGGTATGACAGTGAACAAAAAACAGAGACAATGA
** * * * *
5925371 CAGACACAATTACTCCGGGAATGTTAGGATTATCTGAAACTGAAACTTTAATACCTTTGAGCTTT
259 CAGACACCCTTGCTCCGGGAAAGTTAGGATTATCTGAAACTGAAACTTTGATACCCTTGAGCTTT
*
5925436 GCTTTTGAGTGTTACGGGTTATATATATCTTTTGTTCACAAAGTT-GAGAAAATATGATCATCCT
324 GCTTTTGAGTGTTACGGG-T-TCTATATCTTTTGTTCACAAAGTTGGA-AAAATATGATCATCCT
* * * * *
5925500 TACCTTTTTAATCTTTCGAAACTCAAAGCACTCCCACTACCTATTCTTTCTTTAGCTTTTATATT
386 TGCCTTTTTAGTCTTTCGAAACTCAAAACACTCCCACTACCTACTCTTTCTTTGGCTTTTATATT
*
5925565 TTCTTCTTTTTTCTGCACCTTAAAGCCTAAGAGTCTTACAAAAATGACTCAAAACTGTAATAATA
451 TTGTTCTTTTTTCTGCACCTTAAAGCCTAAGAGTCTTACAAAAATGACTCAAAACTGTAATAATA
* *
5925630 ATGACACGCCAGCACCCAAATTTTTTTTTCATGTACTGGTGCCACCCATTGACTGGCCAGCACCT
516 ATGACACGCCAGCACCCAAATTTTTTTTTCATGTACTGGTGCCGCCCATTGACAGGCCAGCACCT
5925695 AAATTTTTT
581 AAATTTTTT
* *
5925704 ATTTCGTGTACTGGTTTCTGCTATTGACAAGCCAGCACTCAAAAAAATTTATTTTCGTTTACTGG
1 -TTTCGTGTACTGGTTTCTGCTATTGACAAGCCAGCACTCAAAAAAAATTCTTTTCGTTTACTGG
*
5925769 TGCCAGCCATTGACAGGCAATCACCAAAAAAATATTTTTTTCCGTGTACTGGTGCTGGCTTTAGA
65 TGCCGGCCATTGACAGGCAATCACCAAAAAAATATTTTTTTCCGTGTACTGGTGCTGGCTTTAGA
* * *
5925834 ATATGTAATGTTAAATAAAATTTTGGGACTGTTGATAAACTTTACCTCAAATTAGTAATTTCGAT
130 ATATGTAATGTTAAATAAAATTTTGGGACTGTTGATGAACTTTACCTTAAATTAGTAATTTCAAT
* *
5925899 TAAATCAGATATTCTATTTTTAGTTCATACAGGTATGATAGTGAACAAAAAACAGAGACAATGAC
195 TAAATCAGATTTTCTATTTTTAGTTCATACAGGTATGACAGTGAACAAAAAACAGAGACAATGAC
*
5925964 AGACACCCTTGCTCC-GGAAAGTTTTGGATTATCTGAAACTGAAACTTTGATACCCTTGAGCTTT
260 AGACACCCTTGCTCCGGGAAAG-TTAGGATTATCTGAAACTGAAACTTTGATACCCTTGAGCTTT
* **
5926028 GCTTTTGAGTGTTACGGGTTCTATATCTTTTGTTCACAAAGTTGGAAAAACATGATCATCCTTAT
324 GCTTTTGAGTGTTACGGGTTCTATATCTTTTGTTCACAAAGTTGGAAAAATATGATCATCCTTGC
*
5926093 CTTTTTAGTCTTTCGAAACTCAAAACACTCCCACTACCTACTCTTACTTTGGCTTTTATATTTTG
389 CTTTTTAGTCTTTCGAAACTCAAAACACTCCCACTACCTACTCTTTCTTTGGCTTTTATATTTTG
* * * *
5926158 TACTTTTTT-TGCACCTTAAAGCCTAAGAATCTTACAAAAAGGACTCAAAACTATAATAATAATA
454 TTCTTTTTTCTGCACCTTAAAGCCTAAGAGTCTTACAAAAATGACTCAAAAC--T-GTAATAATA
* * * * *
5926222 ATAACATGCCAGCACCAAAATTTTTTTTTTCATGTACTGGTGCCGTCCATTGACAGGCCAGTACC
516 ATGACACGCCAGCACCCAAA-TTTTTTTTTCATGTACTGGTGCCGCCCATTGACAGGCCAGCACC
**
5926287 TAAAACTTTT
580 TAAATTTTTT
* *
5926297 TTTCGTGTACTGGTTTCTGCTATTGACAAGCCAGCCCT-AAAAAAAATTCTTTTCATTTACTGGT
1 TTTCGTGTACTGGTTTCTGCTATTGACAAGCCAGCACTCAAAAAAAATTCTTTTCGTTTACTGGT
** * * * *
5926361 GCCGGTTATTGACAGGCCAGCACTAACAAAATTATTTTTTTCCGTGTACTGGTGCTGGCTTTAGA
66 GCCGGCCATTGACAGGCAATCACCAA-AAAAATATTTTTTTCCGTGTACTGGTGCTGGCTTTAGA
* * *
5926426 ATCTGTAATGTTAAATAAAATTTAGGGACTGTTGGTGAACTTTACCTTAAATTAGTAATTTCAAT
130 ATATGTAATGTTAAATAAAATTTTGGGACTGTTGATGAACTTTACCTTAAATTAGTAATTTCAAT
* * *
5926491 TAAATCAGA---T-T-TTTTTCGTTCATACAGGTATGACAGTGAACAAAAAATAGAGACAATTAC
195 TAAATCAGATTTTCTATTTTTAGTTCATACAGGTATGACAGTGAACAAAAAACAGAGACAATGAC
* * *
5926551 AAACACCCTTGCTCCGGGAAAGTTAGAATTATCTGAAACTGAAACTGAAATTTTGATACCTTTGA
260 AGACACCCTTGCTCCGGGAAAGTTAGGATTATCTGAAACTGAAAC------TTTGATACCCTTGA
* * * * *
5926616 GCTTTGCTTTTGAATGTTACGGGTTCTATATCATTTGTTAACAAAGTTGGAGAAATATTATCATC
319 GCTTTGCTTTTGAGTGTTACGGGTTCTATATCTTTTGTTCACAAAGTTGGAAAAATATGATCATC
* *
5926681 CTTTCCTTTTTAGTTTTTCGAAACTCAAAACACTCCCACTACCTACTCTTTCTTTGGCTTTTATA
384 CTTGCCTTTTTAGTCTTTCGAAACTCAAAACACTCCCACTACCTACTCTTTCTTTGGCTTTTATA
* * *
5926746 TTTTATTCTTTTTTCTGCACCTTAAAGCCTAAAAATCTTACAAAAATGACTCAAAACTGTAATAA
449 TTTTGTTCTTTTTTCTGCACCTTAAAGCCTAAGAGTCTTACAAAAATGACTCAAAACTGTAATAA
* * * *
5926811 TAATGACACGCCAG-AACCTAATTTTTTTTTCATGTACTGGTGCCGCCTATTGAGAGGCCAGCAC
514 TAATGACACGCCAGCACCCAAATTTTTTTTTCATGTACTGGTGCCGCCCATTGACAGGCCAGCAC
5926875 CTAAATTTTTT
579 CTAAATTTTTT
* *
5926886 TTCCGTGTACTGGTTTCTGCTATTGACAAGGCAGCACTCAAAAAAAATTCTTTTCGTTTACTGGT
1 TTTCGTGTACTGGTTTCTGCTATTGACAAGCCAGCACTCAAAAAAAATTCTTTTCGTTTACTGGT
*
5926951 GCCGGCCATTGACAGGCAATCACCAAAAAAATTTTTTTTTTCCGTGTACTGGTGCTGGCTTTAGA
66 GCCGGCCATTGACAGGCAATCACCAAAAAAA-TATTTTTTTCCGTGTACTGGTGCTGGCTTTAGA
* *
5927016 ATATGTAATGTTAAATAAAATTTTGAGACTGTTGATGAACTTTACCTTAAATTAGCAATTTCAAT
130 ATATGTAATGTTAAATAAAATTTTGGGACTGTTGATGAACTTTACCTTAAATTAGTAATTTCAAT
*
5927081 TAAATCAGATTTTCTATTTTTAGTTCATACAGGTTTGACAGTGAACAAAAAACAGAGACAATGAC
195 TAAATCAGATTTTCTATTTTTAGTTCATACAGGTATGACAGTGAACAAAAAACAGAGACAATGAC
* * *
5927146 AGACACCTTTGCTCCAGGAAAGTTAGGATTATCTGAAATTGAAACTTTGATACCCTTGAGCTTTG
260 AGACACCCTTGCTCCGGGAAAGTTAGGATTATCTGAAACTGAAACTTTGATACCCTTGAGCTTTG
* ** * *
5927211 GTTTTTTGTGTTACGGGTTCTATATCTTCTGTTCACAAAGTTGGAAAAATATGATCATCCTTGCA
325 CTTTTGAGTGTTACGGGTTCTATATCTTTTGTTCACAAAGTTGGAAAAATATGATCATCCTTGCC
* *
5927276 TTTTTAGTCTTTCGAAACTCAAAACACTCCTACTACCTACTCTTTCTTTGGCTTTTATACTTTGT
390 TTTTTAGTCTTTCGAAACTCAAAACACTCCCACTACCTACTCTTTCTTTGGCTTTTATATTTTGT
**
5927341 TCTTTTTTCTGCACCTTAAAGCCTAAGAGTCTTTTAAAAATGACTCAAAACTGTAATAATAATGA
455 TCTTTTTTCTGCACCTTAAAGCCTAAGAGTCTTACAAAAATGACTCAAAACTGTAATAATAATGA
** * * * * *
5927406 CACAACAGCACCCAAAATTTTTTCTTCATTTACTAGTGCCGCCCATTGATAGGCCATCACCTAAA
520 CACGCCAGCACCC-AAATTTTTTTTTCATGTACTGGTGCCGCCCATTGACAGGCCAGCACCTAAA
5927471 TTTTTTTT
584 --TTTTTT
* * * * * *
5927479 TTTCGTATACTGGTTTATGCTATTGACAAGGCAACACTCAAAAAAAAAATTATTTTCGTTTATTG
1 TTTCGTGTACTGGTTTCTGCTATTGACAAGCCAGCACTC--AAAAAAAATTCTTTTCGTTTACTG
* *
5927544 GTGCCGGCCATTGACAGGCAATCACCAAAAAAATA-TTTTTTCCGTGTACTGGTGTTAGCTTTAG
64 GTGCCGGCCATTGACAGGCAATCACCAAAAAAATATTTTTTTCCGTGTACTGGTGCTGGCTTTAG
*
5927608 AATATGTATTGTTAAATAAAATTTTGGGACTGTTGATGAACTTTACCTTAAATTAGTAATTTCAA
129 AATATGTAATGTTAAATAAAATTTTGGGACTGTTGATGAACTTTACCTTAAATTAGTAATTTCAA
5927673 TTAAATCAGATTTTCTATTTTTAGTTCATACAGGTATGACAGTGAACAAAAAACAGAGACAATGA
194 TTAAATCAGATTTTCTATTTTTAGTTCATACAGGTATGACAGTGAACAAAAAACAGAGACAATGA
* *
5927738 CAGACACCCTTGCTCCGGGAAAGATT-GGATTATCTGAAATTGAAACTTTGATACCCTTGAACTT
259 CAGACACCCTTGCTCCGGGAAAG-TTAGGATTATCTGAAACTGAAACTTTGATACCCTTGAGCTT
* * * * * * *
5927802 TGCTTTTAAGTGTTTCGGGTTTTATATATTTTATTCACAAAGTTGGAAAAATATGATTATTCTTG
323 TGCTTTTGAGTGTTACGGGTTCTATATCTTTTGTTCACAAAGTTGGAAAAATATGATCATCCTTG
* * *
5927867 CCTTTCTAATCTTTCGAAACACAAAACACTCCCACTACCTACTCTTTCTTTGGCTTTTATATTTT
388 CCTTTTTAGTCTTTCGAAACTCAAAACACTCCCACTACCTACTCTTTCTTTGGCTTTTATATTTT
* * *
5927932 GTTCTTTTTTTTTGCACCTTAAAGCCTAAGAG---T-CAAAAATGACTCAAAATTATAATAATAA
453 GTTC-TTTTTTCTGCACCTTAAAGCCTAAGAGTCTTACAAAAATGACTCAAAA--CT-GTAATAA
* ** * *
5927993 TAATGACATGCCAATA-CC-AATTTTTTTTTCATGTACTGGTGCCGCCCATTGACAAGCTAGCAC
514 TAATGACACGCCAGCACCCAAATTTTTTTTTCATGTACTGGTGCCGCCCATTGACAGGCCAGCAC
5928056 CTAAATTTTTTT
579 CTAAA-TTTTTT
** * **
5928068 TTTCAAGTATTGGTTTCTGCTATTGACAAGCCAATACTCAAAAAAAAAATTCTTTTCGTTTACTG
1 TTTCGTGTACTGGTTTCTGCTATTGACAAGCCAGCACTC--AAAAAAAATTCTTTTCGTTTACTG
** * * * * *
5928133 GTGCCGGTTATTGATAGACCATCACCAACAAAATTTTTTTTTCCGTGTACTGGTGCTGGCTTTAG
64 GTGCCGGCCATTGACAGGCAATCACCAAAAAAATATTTTTTTCCGTGTACTGGTGCTGGCTTTAG
* *
5928198 AATATGTAATGTTAAATAAAATTTAGGGACTGTAGATGAACTTTACCTTAAATTAGTAATTTCAA
129 AATATGTAATGTTAAATAAAATTTTGGGACTGTTGATGAACTTTACCTTAAATTAGTAATTTCAA
*
5928263 TTAAATCAGATTTT-TAATTTTTAGTTCATACAGGTATGACAGTAAACAAAAAACAGAGACAATG
194 TTAAATCAGATTTTCT-ATTTTTAGTTCATACAGGTATGACAGTGAACAAAAAACAGAGACAATG
* *
5928327 ACAAACACCCTTGCTCCGGGAAAGTTAAGATTATCTGAAACTGAAACTGAAACTGAAACTTTGAT
258 ACAGACACCCTTGCTCCGGGAAAGTT-AG--GAT-T---A-T----CTGAAACTGAAACTTTGAT
* * * *
5928392 ACCTTTGAGCTTTGCTTTTGAATGTTACGGGTTATATATATTTTGTTCACAAAGTTGGAAAAATA
311 ACCCTTGAGCTTTGCTTTTGAGTGTTACGGGTTCTATATCTTTTGTTCACAAAGTTGGAAAAATA
* * * **
5928457 TGATTATCCTTCCCTTTTTAGTTTTTCGAAACTCAAAACACTCTTACTACCTACTCTTTCTTTGG
376 TGATCATCCTTGCCTTTTTAGTCTTTCGAAACTCAAAACACTCCCACTACCTACTCTTTCTTTGG
* *
5928522 CTTTTATATTTTCTTCTTTTTTTCTGCACCTTAAAGCCTAAAAGTCTTACAAAAATGACTCAAAA
441 CTTTTATATTTTGTTC-TTTTTTCTGCACCTTAAAGCCTAAGAGTCTTACAAAAATGACTCAAAA
** * *
5928587 CTGTAATAATAATGACACGCCAGCACTTAAAATTTTTTTTCATGTACTGGTGCCGCCCATTAACA
505 CTGTAATAATAATGACACGCCAGCACCCAAATTTTTTTTTCATGTACTGGTGCCGCCCATTGACA
5928652 GGCCAGCACCTAAAATTTTTTTT
570 GGCCAGCACCT-AAA--TTTTTT
* * * *
5928675 TTTCGTGTACTGGTTTCTGCTATTGATAAGGCAGCACTCAAAAAAAATTCTTATCGTTTACTCGT
1 TTTCGTGTACTGGTTTCTGCTATTGACAAGCCAGCACTCAAAAAAAATTCTTTTCGTTTACTGGT
* *
5928740 GCCGGCCATTGACAGACAATCACCAAAAAAATATTTTTTTTTTCCGTGTACTGGTGCTGGTTTTA
66 GCCGGCCATTGACAGGCAATCACCAAAAAAATA---TTTTTTTCCGTGTACTGGTGCTGGCTTTA
* *
5928805 GAATATGTAATGTTAAATAAAATTTTGGGACTATTGATGAGCTTTACCTTAAATTAGTAATTTCA
128 GAATATGTAATGTTAAATAAAATTTTGGGACTGTTGATGAACTTTACCTTAAATTAGTAATTTCA
* *
5928870 ATTAAATAAGATTTTCTATTTTTAGTTCATACAAGTATGACAGTG-A-AAAAAACAGAGACAATG
193 ATTAAATCAGATTTTCTATTTTTAGTTCATACAGGTATGACAGTGAACAAAAAACAGAGACAATG
* * * *
5928933 ACTGACACCCTTGCTCCGAGAAAGTTAGGATTATTTGAAACTGAAACTTTGATACCCTTGAGCTC
258 ACAGACACCCTTGCTCCGGGAAAGTTAGGATTATCTGAAACTGAAACTTTGATACCCTTGAGCTT
* ** * * *
5928998 TGGTTTTCTGTGTTACGGGTTCTATATCTTTTGTTTACAAAATTGGAAAAATATGATCATCCTTA
323 TGCTTTTGAGTGTTACGGGTTCTATATCTTTTGTTCACAAAGTTGGAAAAATATGATCATCCTTG
* * *
5929063 CCTTTTTAGTCTTTCGAAACTCAAAACAC-CTACACTACCTACTTTTTCTTTGGCTTATATATTT
388 CCTTTTTAGTCTTTCGAAACTCAAAACACTC-CCACTACCTACTCTTTCTTTGGCTTTTATATTT
* * *
5929127 TGTT-TTTTTT-TGCACCTTAAAACCTAACAGTCTTACAAAAATGACTCAAAACTATAATAATAA
452 TGTTCTTTTTTCTGCACCTTAAAGCCTAAGAGTCTTACAAAAATGACTCAAAACTGTAATAATAA
* * * * * * *
5929190 TGACATGCCAGCA-AC-AATTTCTTTTTTCATGTACTTGTGCCGTCCATTGATAGGCTAGCATCT
517 TGACACGCCAGCACCCAAATTT-TTTTTTCATGTACTGGTGCCGCCCATTGACAGGCCAGCACCT
*
5929253 AAAATTTTT
581 AAATTTTTT
* * * * * *
5929262 TTTCATGTACTGGTTTCTGCTATTGACAAGTCAGCACT-AAAAAAAA----ATTCATATACTAGT
1 TTTCGTGTACTGGTTTCTGCTATTGACAAGCCAGCACTCAAAAAAAATTCTTTTCGTTTACTGGT
** * * ** * *
5929322 GCCGGCCATCCACAGGCCAGCA-CAAAAAAA-AAGTTTTTCCGTTTACTGGTGCTGGCTTTAAAA
66 GCCGGCCATTGACAGGCAATCACCAAAAAAATATTTTTTTCCGTGTACTGGTGCTGGCTTTAGAA
5929385 TATGTAATGTTAAATAAAATTTTGGGACTGTTGATGAACTTTACCTTAAATTAGTAATTTCAATT
131 TATGTAATGTTAAATAAAATTTTGGGACTGTTGATGAACTTTACCTTAAATTAGTAATTTCAATT
* * * * **
5929450 AAATCAAATTTTCTATTTTTAGTTCATACTGGTATGACAATAAACAAAAAACAGAGGTAATGACA
196 AAATCAGATTTTCTATTTTTAGTTCATACAGGTATGACAGTGAACAAAAAACAGAGACAATGACA
* * * *
5929515 GACACTCTTTCTCCGGGAAAGTTAGGATTATCTAAAACTGAAACTTTGATACTCTTGAGCTTTGC
261 GACACCCTTGCTCCGGGAAAGTTAGGATTATCTGAAACTGAAACTTTGATACCCTTGAGCTTTGC
*
5929580 TTTTGAGTGTTACGGGTTCTATATCTTTTGTTGACAAAGTTGGAAAAATATGATCATCCTTGCCT
326 TTTTGAGTGTTACGGGTTCTATATCTTTTGTTCACAAAGTTGGAAAAATATGATCATCCTTGCCT
* * *
5929645 TTTTAGTCTTTCGAAGCTCAAAACACTCCTACTACCTACTCTTTCTTTGGCTTTTATATTTTGTA
391 TTTTAGTCTTTCGAAACTCAAAACACTCCCACTACCTACTCTTTCTTTGGCTTTTATATTTTGTT
* * *
5929710 CTTTTTT-TGCACCTTAAAGCATAAGAGTCTTACAAAAATAACTCAAAACTATAATAATAATGAC
456 CTTTTTTCTGCACCTTAAAGCCTAAGAGTCTTACAAAAATGACTCAAAACTGTAATAATAATGAC
* * *
5929774 ATGCCAGCA-CC-AATTTTTTTTTCATGTACTGGTGCCGCCCATTGACAGGCTAGCTCCTAAATT
521 ACGCCAGCACCCAAATTTTTTTTTCATGTACTGGTGCCGCCCATTGACAGGCCAGCACCTAAATT
5929837 TTTT
586 TTTT
* * * *
5929841 TTTCGTATACTGGTTTCTGCTATTGACAAGCCAGCATTCAAAAAAATTTATTTTCGTTTACTGGT
1 TTTCGTGTACTGGTTTCTGCTATTGACAAGCCAGCACTCAAAAAAAATTCTTTTCGTTTACTGGT
* * *
5929906 GCCGGCCATTGACAGGTAATCACCAAAAAGATATTTTTTTCCGTGTACTGGTGCTGGCTTTAAAA
66 GCCGGCCATTGACAGGCAATCACCAAAAAAATATTTTTTTCCGTGTACTGGTGCTGGCTTTAGAA
* * * * *
5929971 TATGTAATCTTAAATAAAATTTAGGGACTGTTGATCAATTTTACCTCAAATTAGTAATTTCAATT
131 TATGTAATGTTAAATAAAATTTTGGGACTGTTGATGAACTTTACCTTAAATTAGTAATTTCAATT
* * * *
5930036 AAATCAGATTTTCTATTTTTCGTTCATACAGGTATGACAATAAACAAAAAACAAAGACAATGACA
196 AAATCAGATTTTCTATTTTTAGTTCATACAGGTATGACAGTGAACAAAAAACAGAGACAATGACA
* * *
5930101 AACACCCTTGCTCCGGGAAAGTTAGAATTATCTGAAACTGAAACTTTGATACCCTTGAGCTTTGG
261 GACACCCTTGCTCCGGGAAAGTTAGGATTATCTGAAACTGAAACTTTGATACCCTTGAGCTTTGC
** * * *
5930166 TTTTTTGTGTTACGGGTTCTAAATCTTTTGTTCAAAAAGTTGGAAAAATATGATCATCCTTACCT
326 TTTTGAGTGTTACGGGTTCTATATCTTTTGTTCACAAAGTTGGAAAAATATGATCATCCTTGCCT
* *
5930231 TTTTAGTCTTTCGAAACTCAAAACACTTCCACTACCTA--C--TCTTTGGCTTTTATATTTTCTT
391 TTTTAGTCTTTCGAAACTCAAAACACTCCCACTACCTACTCTTTCTTTGGCTTTTATATTTTGTT
* *
5930292 CTTTTTTTCTGCACCTTAAAGCCTAAAAGTCTTACAAAAATGACTCAAAACTGTAATAATAATTA
456 C-TTTTTTCTGCACCTTAAAGCCTAAGAGTCTTACAAAAATGACTCAAAACTGTAATAATAATGA
* ** * ** *
5930357 CATGCCAAAACCTAAATTTTTTTTTTCATGTACTGGTGCCGCTAATTGACAGGCCAACACCT-AA
520 CACGCCAGCACCCAAA-TTTTTTTTTCATGTACTGGTGCCGCCCATTGACAGGCCAGCACCTAAA
5930421 TTTTTT
584 TTTTTT
* *
5930427 TTTCGTGTACTAGTTTCTGCTATTGACAAGCCAGCACTC-AAAAAAATTCTTTTTGTTTACTGGT
1 TTTCGTGTACTGGTTTCTGCTATTGACAAGCCAGCACTCAAAAAAAATTCTTTTCGTTTACTGGT
**
5930491 GCCGGCCATTGACAGGCAATCACC-AAAAAATATTTTTCTTTTTGTGTACTGGTGCTGGCTTTAG
66 GCCGGCCATTGACAGGCAATCACCAAAAAAATA-TTTT-TTTCCGTGTACTGGTGCTGGCTTTAG
* * * * *
5930555 AATATGTAATGTTAAATAAAATTTAGGAACTGTTGATAAATTTTACCTTAAATTAGAAATTT-AA
129 AATATGTAATGTTAAATAAAATTTTGGGACTGTTGATGAACTTTACCTTAAATTAGTAATTTCAA
* *
5930619 TTAAATCAGATTTTCAATTTTTAGTTCATACAGGTATGACAGTGAACAAAAAACCGAGACAATGA
194 TTAAATCAGATTTTCTATTTTTAGTTCATACAGGTATGACAGTGAACAAAAAACAGAGACAATGA
* *
5930684 CAGACACCCTTGCTCCGGGAAACTTAGGATTATCTGAAACTGAAACTTTGATACCTTTGAGCTTT
259 CAGACACCCTTGCTCCGGGAAAGTTAGGATTATCTGAAACTGAAACTTTGATACCCTTGAGCTTT
*
5930749 GCTTTTGAGTGTTGA-GGGTTCTATATCTTTTGTTCACAAAGTTGGAAAAATATGATCATCCTTT
324 GCTTTTGAGTGTT-ACGGGTTCTATATCTTTTGTTCACAAAGTTGGAAAAATATGATCATCCTTG
*
5930813 CCTTTTTAGTTTTTCGAAACTCAAAACACTCCCACTACCTACTCTTTCTTTGGCTTTTATATTTT
388 CCTTTTTAGTCTTTCGAAACTCAAAACACTCCCACTACCTACTCTTTCTTTGGCTTTTATATTTT
* * *
5930878 CTTCTTTTTTCTGCACCTTAAAGCCTAAAAATCTTACAAAAATGACTCAAAACTGTAATAATAAT
453 GTTCTTTTTTCTGCACCTTAAAGCCTAAGAGTCTTACAAAAATGACTCAAAACTGTAATAATAAT
* * *
5930943 GACACGCCAGAACCTAAA-TTTTTTTTCATGTACTGGTGCCGCCCATTGAGAGGCCAGCACCTAA
518 GACACGCCAGCACCCAAATTTTTTTTTCATGTACTGGTGCCGCCCATTGACAGGCCAGCACCTAA
5931007 ATTTTTT
583 ATTTTTT
* * *
5931014 TTCCGTGTACTGGTTTCTGCTATTGACAAGGCAGCACTAAAAAAAAATTCTTTTCGTTTACTGGT
1 TTTCGTGTACTGGTTTCTGCTATTGACAAGCCAGCACTCAAAAAAAATTCTTTTCGTTTACTGGT
* *
5931079 GCCGGCCATTGACAGACAATCACCAAAAAAATATTTTTTTTTTCCGTGTACTGGTGTTGGCTTTA
66 GCCGGCCATTGACAGGCAATCACCAAAAAAATA---TTTTTTTCCGTGTACTGGTGCTGGCTTTA
* *
5931144 AAATATGTAATGTTAAATAAAATTTTGAGACTGTTGATGAACTTTACCTTAAATTAGTAATTTCA
128 GAATATGTAATGTTAAATAAAATTTTGGGACTGTTGATGAACTTTACCTTAAATTAGTAATTTCA
*
5931209 ATTAAATCAGATTTTCTATTTTTAGTTCATACAGGTTTGACAGTGAACAAAAAACAGAGACAATG
193 ATTAAATCAGATTTTCTATTTTTAGTTCATACAGGTATGACAGTGAACAAAAAACAGAGACAATG
*
5931274 ACAGACACCCTTGCTCCAGGAAAGTTAGGATTATCTGAAACTGAAACTTTGATACCCTTGAGCTT
258 ACAGACACCCTTGCTCCGGGAAAGTTAGGATTATCTGAAACTGAAACTTTGATACCCTTGAGCTT
* ** * * *
5931339 TGGTTTTTTGTGTTACGGGTTCTATATCTTCTGTTCACAAAGTTGGAAAAATATGATCATCATTA
323 TGCTTTTGAGTGTTACGGGTTCTATATCTTTTGTTCACAAAGTTGGAAAAATATGATCATCCTTG
*
5931404 CCTTTTTAGTCTTTCGAAACTCAAAACACTCCTACTACCTACTCTTTCTTTGGCTTTTATATTTT
388 CCTTTTTAGTCTTTCGAAACTCAAAACACTCCCACTACCTACTCTTTCTTTGGCTTTTATATTTT
* * *
5931469 ATTC-TTTTTCTGCACCTTAAAGCCTAAGAGTCTTTCAAAAATGACTCAAAACTATAATAATAAT
453 GTTCTTTTTTCTGCACCTTAAAGCCTAAGAGTCTTACAAAAATGACTCAAAACTGTAATAATAAT
* * * * *
5931533 GACACAG-TAGCACCCAAAATTTTTTCTTCATTTACTGGTGCCACCCATTGACAGGCCATCACCT
518 GACAC-GCCAGCACCC-AAATTTTTTTTTCATGTACTGGTGCCGCCCATTGACAGGCCAGCACCT
5931597 AAATTTTTT
581 AAATTTTTT
* * * * *
5931606 TTTCGTATACTGGTTTCTGCTATTGACAAGGCAACACTCAAAAAAAATTATTTTCGTTTATTGGT
1 TTTCGTGTACTGGTTTCTGCTATTGACAAGCCAGCACTCAAAAAAAATTCTTTTCGTTTACTGGT
* *
5931671 GCCGGCCATTGACAGGCAATCACCAAAAAAATACTTTTTTCCGTGTACTGGTGTTGGCTTTAGAA
66 GCCGGCCATTGACAGGCAATCACCAAAAAAATATTTTTTTCCGTGTACTGGTGCTGGCTTTAGAA
* *
5931736 TATGTATTGTTAAATAAAATTTTGGGACTGTTGATGAACTTTACCTTAAATTAGTAATTTTAATT
131 TATGTAATGTTAAATAAAATTTTGGGACTGTTGATGAACTTTACCTTAAATTAGTAATTTCAATT
5931801 AAATCAGATTTTCTATTTTTAGTTCATACAGGTATGACAGTGAACAAAAAACAGAGACAATGACA
196 AAATCAGATTTTCTATTTTTAGTTCATACAGGTATGACAGTGAACAAAAAACAGAGACAATGACA
*
5931866 GACACCCTTGCTCCGGGAAAGATT-GGATTATCTGAAATTGAAACTTTGATACCCTTGAGCTTTG
261 GACACCCTTGCTCCGGGAAAG-TTAGGATTATCTGAAACTGAAACTTTGATACCCTTGAGCTTTG
* * * * * * *
5931930 CTTTTAAGTGTTTCGGGTTTTATATATTTTATTCACACAGGTT-GAAAAATATGATCATTCTTGC
325 CTTTTGAGTGTTACGGGTTCTATATCTTTTGTTCACA-AAGTTGGAAAAATATGATCATCCTTGC
* *
5931994 CTTTTTAATCTTTCGAAACACAAAACACTCCCACTACCTACTCTTTCTTTGGCTTTTATATTTTG
389 CTTTTTAGTCTTTCGAAACTCAAAACACTCCCACTACCTACTCTTTCTTTGGCTTTTATATTTTG
* * *
5932059 TTCTTTTTTTTTGCACCTTAAAGCCTAAGAGTCTTACAAAAATGACTCAAAATTATAATAATAAT
454 TTC-TTTTTTCTGCACCTTAAAGCCTAAGAGTCTTACAAAAATGACTCAAAA--CT-GTAATAAT
* * *
5932124 AATGACATGCCAGTA-CC-AATTTTTTTTTCATGTACTGGTGCCGCCCATTGACAGGCTAGCACC
515 AATGACACGCCAGCACCCAAATTTTTTTTTCATGTACTGGTGCCGCCCATTGACAGGCCAGCACC
5932187 TAAATTTTTT
580 TAAATTTTTT
* * * **
5932197 TTTCATGTATTGGTTTCTGCTATAGACAAGCCAATACTCAAAAAAAAAATTCTTTTCGTTTACTG
1 TTTCGTGTACTGGTTTCTGCTATTGACAAGCCAGCACTC--AAAAAAAATTCTTTTCGTTTACTG
** * * * * *
5932262 GTGCCGGTTATTGACAGACCATCACCAACAAAATTTTTTTTTTCGTGTACTGGTGCTGGCTTTAG
64 GTGCCGGCCATTGACAGGCAATCACCAAAAAAATATTTTTTTCCGTGTACTGGTGCTGGCTTTAG
* *
5932327 AATATGTAATGTTAAATAAAATTTAGGG-CTGTAGATGAACTTTACCTTAAATTAGTAATTTCAA
129 AATATGTAATGTTAAATAAAATTTTGGGACTGTTGATGAACTTTACCTTAAATTAGTAATTTCAA
*
5932391 TTAAATCAGATTTTCAATTTTTAGTTCATACAGGTATGACAGTGAACAAAAAACAGAGACAATGA
194 TTAAATCAGATTTTCTATTTTTAGTTCATACAGGTATGACAGTGAACAAAAAACAGAGACAATGA
* * *
5932456 CAAACACCCTTGCTCTGGGAAAGTTAAGATTATCTGAAACTGAAACTGAAACTGAAACTGAAACT
259 CAGACACCCTTGCTCCGGGAAAGTT-AG-------G--A-T-----T--ATCTGAAACTGAAACT
* *
5932521 TTGATACCTTTGAGCTTTGCTTTTGAATGTTACGGGTTCTATATCTTTTGTTCACAACA-TTGGA
306 TTGATACCCTTGAGCTTTGCTTTTGAGTGTTACGGGTTCTATATCTTTTGTTCACAA-AGTTGGA
* * * *
5932585 AAATTATGATTAAT-CTTGCCTTTTTAGTTTTTCGAAACTCAAAACACTCCTACTACCTACTCTT
370 AAAATATGA-TCATCCTTGCCTTTTTAGTCTTTCGAAACTCAAAACACTCCCACTACCTACTCTT
* *
5932649 TCTTTGGCTTTTATATTTTCTTCTTTTTTCTGCACCTTAAAGCCTAAAAGTCTTACAAAAATGAC
434 TCTTTGGCTTTTATATTTTGTTCTTTTTTCTGCACCTTAAAGCCTAAGAGTCTTACAAAAATGAC
** * *
5932714 TCAAAACTGTAATAATAATGACACGCCAGCACTTAAA-ATTTTTTTCATGTACTGGTGCCGCCCG
499 TCAAAACTGTAATAATAATGACACGCCAGCACCCAAATTTTTTTTTCATGTACTGGTGCCGCCCA
*
5932778 TTAACAGGCGCTAGCACCTAAATTTTTTT
564 TTGACAGGC-C-AGCACCTAAA-TTTTTT
* * * * * *
5932807 TTTCGTATACTGGTTTCTGCTATTGATAAGGCAGCACTAAAAAAAAAATCTTATCGTTTACTGGT
1 TTTCGTGTACTGGTTTCTGCTATTGACAAGCCAGCACTCAAAAAAAATTCTTTTCGTTTACTGGT
* * * *
5932872 ACCGGCCATTGACAGACAGTCACCAAAAAAATATTTTTTTTTCCGTGTACTGGTGTTGGCTTTAG
66 GCCGGCCATTGACAGGCAATCACCAAAAAAATA--TTTTTTTCCGTGTACTGGTGCTGGCTTTAG
* *
5932937 AATATGTAATGTTAAATAAAATTTTGGGACTATTGATGAGCTTTACCTTAAATTAGTAATTTCAA
129 AATATGTAATGTTAAATAAAATTTTGGGACTGTTGATGAACTTTACCTTAAATTAGTAATTTCAA
* *
5933002 TTAAATAAGATTTTCTATTTTTAGTTCATACAGGTATGACAGTGAA-AAAAAACAGAGACAATAA
194 TTAAATCAGATTTTCTATTTTTAGTTCATACAGGTATGACAGTGAACAAAAAACAGAGACAATGA
* *
5933066 CAGACACCCTTGCTTCGGGAAAGTTAGAATTATCTGAAACTGAAACTTTGATACCCTTGAGCTTT
259 CAGACACCCTTGCTCCGGGAAAGTTAGGATTATCTGAAACTGAAACTTTGATACCCTTGAGCTTT
* ** * * * * *
5933131 GGTTTTTTTGTGTTACGGGTTCTATATCTTTTATTTAGAAAGTTGAAAAAATATGATCATCATTG
324 -GCTTTTGAGTGTTACGGGTTCTATATCTTTTGTTCACAAAGTTGGAAAAATATGATCATCCTTG
* *
5933196 CCTTTTTAATCTTTCGAAACTCAAAACACTCCTACTACCTACTCTTTCTTTGGCTTTTATATTTT
388 CCTTTTTAGTCTTTCGAAACTCAAAACACTCCCACTACCTACTCTTTCTTTGGCTTTTATATTTT
* * *
5933261 ATTCTTTTTTCTCCACCTTAAAGCCTAAGAGTCTTTCAAAAATGACTCAAAACTGTAATAAAAAT
453 GTTCTTTTTTCTGCACCTTAAAGCCTAAGAGTCTTACAAAAATGACTCAAAACTGTAAT---AAT
* * * * *
5933326 AATGACACACCAGCCCCCAAATTTTTTTTTCATATA-TGGTGCCGCCCATTTACAGGCCAGCAAC
515 AATGACACGCCAGCACCCAAATTTTTTTTTCATGTACTGGTGCCGCCCATTGACAGGCCAGCACC
5933390 TAAAATTATTTTT
580 T-AAA-T-TTTTT
* * *
5933403 TTTCGTGTACTGGTTTCGGCTATTGACAAGGCAACACTCAAAAAAAAATTCTTTTCGTTTACTGG
1 TTTCGTGTACTGGTTTCTGCTATTGACAAGCCAGCACTC-AAAAAAAATTCTTTTCGTTTACTGG
* * ****
5933468 TGCTGGCCATTGAAAGGCAATCACCAAAAAAA-AAAAATTTCCGTGTACTGGTGCTGGCTTTAGA
65 TGCCGGCCATTGACAGGCAATCACCAAAAAAATATTTTTTTCCGTGTACTGGTGCTGGCTTTAGA
*
5933532 ATATGTAATGTTAAAAAAAATTTTGGGACTGTTGATGAACTTTACCTTAAATTAGTAATTTCAAT
130 ATATGTAATGTTAAATAAAATTTTGGGACTGTTGATGAACTTTACCTTAAATTAGTAATTTCAAT
* * * * *
5933597 TAAATCAAATTTTCTATTTTTAGTTCATAAAGGTATGACAGTAAATAAAAAACAGAGGCAATGAC
195 TAAATCAGATTTTCTATTTTTAGTTCATACAGGTATGACAGTGAACAAAAAACAGAGACAATGAC
**
5933662 AGACACTTTTGCTCCGGGAAAGTTAGGATTATCTGAAACTGAAACTTTGATACCCTTGAGCTTTG
260 AGACACCCTTGCTCCGGGAAAGTTAGGATTATCTGAAACTGAAACTTTGATACCCTTGAGCTTTG
5933727 CTTTTGAGTGTTACGGGTTCTATATCTTTTGTTCAC
325 CTTTTGAGTGTTACGGGTTCTATATCTTTTGTTCAC
5933763 TAAATTTTTT
Statistics
Matches: 7190, Mismatches: 719, Indels: 295
0.88 0.09 0.04
Matches are distributed among these distances:
577 126 0.02
578 1 0.00
579 270 0.04
580 83 0.01
581 8 0.00
582 47 0.01
583 6 0.00
584 94 0.01
585 274 0.04
586 476 0.07
587 204 0.03
588 129 0.02
589 787 0.11
590 681 0.09
591 606 0.08
592 692 0.10
593 892 0.12
594 399 0.06
595 223 0.03
596 79 0.01
597 63 0.01
598 2 0.00
599 2 0.00
600 2 0.00
602 176 0.02
603 22 0.00
604 1 0.00
605 97 0.01
606 79 0.01
607 74 0.01
608 182 0.03
609 62 0.01
610 271 0.04
611 80 0.01
ACGTcount: A:0.31, C:0.18, G:0.15, T:0.36
Consensus pattern (589 bp):
TTTCGTGTACTGGTTTCTGCTATTGACAAGCCAGCACTCAAAAAAAATTCTTTTCGTTTACTGGT
GCCGGCCATTGACAGGCAATCACCAAAAAAATATTTTTTTCCGTGTACTGGTGCTGGCTTTAGAA
TATGTAATGTTAAATAAAATTTTGGGACTGTTGATGAACTTTACCTTAAATTAGTAATTTCAATT
AAATCAGATTTTCTATTTTTAGTTCATACAGGTATGACAGTGAACAAAAAACAGAGACAATGACA
GACACCCTTGCTCCGGGAAAGTTAGGATTATCTGAAACTGAAACTTTGATACCCTTGAGCTTTGC
TTTTGAGTGTTACGGGTTCTATATCTTTTGTTCACAAAGTTGGAAAAATATGATCATCCTTGCCT
TTTTAGTCTTTCGAAACTCAAAACACTCCCACTACCTACTCTTTCTTTGGCTTTTATATTTTGTT
CTTTTTTCTGCACCTTAAAGCCTAAGAGTCTTACAAAAATGACTCAAAACTGTAATAATAATGAC
ACGCCAGCACCCAAATTTTTTTTTCATGTACTGGTGCCGCCCATTGACAGGCCAGCACCTAAATT
TTTT
Found at i:5928372 original size:6 final size:6
Alignment explanation
Indices: 5928361--5928386 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
5928351 TTAAGATTAT
5928361 CTGAAA CTGAAA CTGAAA CTGAAA CT
1 CTGAAA CTGAAA CTGAAA CTGAAA CT
5928387 TTGATACCTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.46, C:0.19, G:0.15, T:0.19
Consensus pattern (6 bp):
CTGAAA
Found at i:5930452 original size:47 final size:49
Alignment explanation
Indices: 5930351--5930459 Score: 118
Period size: 47 Copynumber: 2.3 Consensus size: 49
5930341 ACTGTAATAA
*
5930351 TAATT-ACATGCCAAAACCTAAATTTTTTTTTTCATGTACTGGTGCCGC
1 TAATTGACAAGCCAAAACCTAAATTTTTTTTTTCATGTACTGGTGCCGC
* * * * * *
5930399 TAATTGACAGGCCAACACCT-AA-TTTTTTTTTCGTGTACTAGTTTCTGC
1 TAATTGACAAGCCAAAACCTAAATTTTTTTTTTCATGTACT-GGTGCCGC
5930447 T-ATTGACAAGCCA
1 TAATTGACAAGCCA
5930460 GCACTCAAAA
Statistics
Matches: 52, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
47 27 0.52
48 13 0.25
49 12 0.23
ACGTcount: A:0.27, C:0.21, G:0.14, T:0.39
Consensus pattern (49 bp):
TAATTGACAAGCCAAAACCTAAATTTTTTTTTTCATGTACTGGTGCCGC
Found at i:5930502 original size:50 final size:51
Alignment explanation
Indices: 5930448--5930545 Score: 119
Period size: 53 Copynumber: 1.9 Consensus size: 51
5930438 AGTTTCTGCT
* *
5930448 ATTGACAAGCCAGCACTCAAAAAA-A-TTCTTTTTGTTTACTGGTGCCGGCC
1 ATTGACAAGCAAGCAC-CAAAAAATATTTCTTTTTGTGTACTGGTGCCGGCC
* *
5930498 ATTGACAGGCAATCACCAAAAAATATTTTTCTTTTTGTGTACTGGTGC
1 ATTGACAAGCAAGCACCAAAAAATA--TTTCTTTTTGTGTACTGGTGC
5930546 TGGCTTTAGA
Statistics
Matches: 40, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
49 7 0.17
50 14 0.35
53 19 0.47
ACGTcount: A:0.29, C:0.20, G:0.17, T:0.34
Consensus pattern (51 bp):
ATTGACAAGCAAGCACCAAAAAATATTTCTTTTTGTGTACTGGTGCCGGCC
Found at i:5932500 original size:6 final size:6
Alignment explanation
Indices: 5932489--5932520 Score: 64
Period size: 6 Copynumber: 5.3 Consensus size: 6
5932479 TTAAGATTAT
5932489 CTGAAA CTGAAA CTGAAA CTGAAA CTGAAA CT
1 CTGAAA CTGAAA CTGAAA CTGAAA CTGAAA CT
5932521 TTGATACCTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.47, C:0.19, G:0.16, T:0.19
Consensus pattern (6 bp):
CTGAAA
Found at i:5933466 original size:52 final size:51
Alignment explanation
Indices: 5933402--5933525 Score: 144
Period size: 51 Copynumber: 2.4 Consensus size: 51
5933392 AAATTATTTT
* *
5933402 TTTTCGTGTACTGGT-TTCGGCTATTGACAAGGCAA-CACTCAAAAAAAAATTC
1 TTTTCGTGTACTGGTGCT-GGCCATTGA-AAGGCAATCAC-CAAAAAAAAATTC
* ***
5933454 TTTTCGTTTACTGGTGCTGGCCATTGAAAGGCAATCACCAAAAAAAAAAAA
1 TTTTCGTGTACTGGTGCTGGCCATTGAAAGGCAATCACCAAAAAAAAATTC
*
5933505 TTTCCGTGTACTGGTGCTGGC
1 TTTTCGTGTACTGGTGCTGGC
5933526 TTTAGAATAT
Statistics
Matches: 62, Mismatches: 8, Indels: 5
0.83 0.11 0.07
Matches are distributed among these distances:
51 36 0.58
52 25 0.40
53 1 0.02
ACGTcount: A:0.31, C:0.19, G:0.20, T:0.30
Consensus pattern (51 bp):
TTTTCGTGTACTGGTGCTGGCCATTGAAAGGCAATCACCAAAAAAAAATTC
Found at i:5933858 original size:370 final size:372
Alignment explanation
Indices: 5933392--5934132 Score: 1184
Period size: 370 Copynumber: 2.0 Consensus size: 372
5933382 CCAGCAACTA
*
5933392 AAATTATTTTTTTTCGTGTACTGGTTTCGGCTATTGACAAGGCAACACTCAAAAAAAAATTCTTT
1 AAATTATTTTTTTTCGTGTACTGGTTTCGGCTATTGACAAGCCAACACTCAAAAAAAAATTCTTT
* * *
5933457 TCGTTTACTGGTGCTGGCCATTGAAAGGCAATCACCAAAAAAAAAAAATTTCCGTGTACTGGTGC
66 TCGTTTACTGGTACCGACCATTGAAAGGCAATCACCAAAAAAAAAAAATTTCCGTGTACTGGTGC
*
5933522 TGGCTTTAGAATATGTAATGTTAAAAAAAATTTTGGGACTGTTGATGAACTTTACCTTAAATTAG
131 TGGCTTTAGAATATGTAATGTTAAAAAAAATTTAGGGACTGTTGATGAACTTTACCTTAAATTAG
* *
5933587 TAATTTCAATTAAATCAAATTTTCTATTTTTAGTTCATAAAGGTATGACAGTAAATAAAAAACAG
196 TAATTTCAATTAAATCAAATTTTCAATTTTTAGTTCATAAAGGTATGACAGTAAACAAAAAACAG
* **
5933652 AGGCAATGACAGACACTTTTGCTCCGGGAAAG-TTAGGATTATCTGAAACTGAAACTTTGATACC
261 AGACAATGACAGACACCCTTGCTCCGGGAAAGATT-GGATTATCTGAAACTGAAACTTTGATACC
*
5933716 CTTGAGCTTTGCTTTTGAGTGTTACGGGTTCTATATCTTTTGTTCACT
325 CTTGAGCTTTGCTTTTGAGTGTTACGGGTTCTATATATTTTGTTCACT
* * *
5933764 AAATT-TTTTTTTT-GTGTATTGGTTTCTGCTAATT-ACAAGCCAATACTCAAAAAAAAATTCTT
1 AAATTATTTTTTTTCGTGTACTGGTTTCGGCT-ATTGACAAGCCAACACTCAAAAAAAAATTCTT
* *******
5933826 TTCGTTTACTGGTACCGACCATTGACAGGCAATCACCAAAAATTTTTTTTTTCCGTGTACTGGTG
65 TTCGTTTACTGGTACCGACCATTGAAAGGCAATCACCAAAAAAAAAAAATTTCCGTGTACTGGTG
* *
5933891 CTGGCTTTAGAATATGTAATGTTAAATAAAATTTAGGGACTGTTGATGAATTTTACCTTAAATTA
130 CTGGCTTTAGAATATGTAATGTTAAAAAAAATTTAGGGACTGTTGATGAACTTTACCTTAAATTA
* * * *
5933956 GTAATTTTAATTAAATCAGATTTTCAATTTTTAGTTCATACAGGTATGACAGTGAACAAAAAACA
195 GTAATTTCAATTAAATCAAATTTTCAATTTTTAGTTCATAAAGGTATGACAGTAAACAAAAAACA
5934021 GAGACAATGACAGACACCCTTGCTCCGGGAAAGATTGGATTATCTGAAACTGAAACTTTGATACC
260 GAGACAATGACAGACACCCTTGCTCCGGGAAAGATTGGATTATCTGAAACTGAAACTTTGATACC
5934086 CTTGAGCTTTGCTTTTGAGTGTTACGGGTTCTATATATTTTGTTCAC
325 CTTGAGCTTTGCTTTTGAGTGTTACGGGTTCTATATATTTTGTTCAC
5934133 AAAGTTGGAA
Statistics
Matches: 339, Mismatches: 28, Indels: 6
0.91 0.08 0.02
Matches are distributed among these distances:
370 321 0.95
371 13 0.04
372 5 0.01
ACGTcount: A:0.32, C:0.15, G:0.17, T:0.36
Consensus pattern (372 bp):
AAATTATTTTTTTTCGTGTACTGGTTTCGGCTATTGACAAGCCAACACTCAAAAAAAAATTCTTT
TCGTTTACTGGTACCGACCATTGAAAGGCAATCACCAAAAAAAAAAAATTTCCGTGTACTGGTGC
TGGCTTTAGAATATGTAATGTTAAAAAAAATTTAGGGACTGTTGATGAACTTTACCTTAAATTAG
TAATTTCAATTAAATCAAATTTTCAATTTTTAGTTCATAAAGGTATGACAGTAAACAAAAAACAG
AGACAATGACAGACACCCTTGCTCCGGGAAAGATTGGATTATCTGAAACTGAAACTTTGATACCC
TTGAGCTTTGCTTTTGAGTGTTACGGGTTCTATATATTTTGTTCACT
Found at i:5935699 original size:594 final size:586
Alignment explanation
Indices: 5933762--5939054 Score: 6033
Period size: 597 Copynumber: 9.0 Consensus size: 586
5933752 CTTTTGTTCA
* * * **
5933762 CTAAATTTTTTTTTTGTGTATTGGTTTCTGCTAATT-ACAAGCCAATACTCAAAAAAAAATTCTT
1 CTAAAATTTTTTTTCGTGTACTGGTTTCTGC-AATTGACAAGCCAGCACTCAAAAAAAAATTC--
* * * ****
5933826 TTCGTTTACTGGTACCGACCATTGACAGG-CAATCACCAAAAATTTTTTTTTTCCGTGTACTGGT
63 AT-G--TACTGGTGCCGGCCATTGACAGGCCAA-CA-CAAAAAAAAATTTTTTCCGTGTACTGGT
*
5933890 GCTGGCTTTAGAATATGTAATGTTAAATAAAATTTAGGGACTGTTGATGAATTTTACCTTAAATT
123 GCTGGCTTTAGAATATGTAATGTTAAATAAAATTTAGGGACTGTTGATGAACTTTACCTTAAATT
* *
5933955 AGTAATTTTAATTAAATCAGATTTTCAATTTTTAGTTCATACAGGTATGACAGTGAACAAAAAAC
188 AGTAATTTCAATTAAATCAGATTTTCTATTTTTAGTTCATACAGGTATGACAGTGAACAAAAAAC
5934020 AGAGACAATGACAGACACCCTTGCTCCGGGAAAGATT-GGATTATCTGAAACTGAAACTTTGATA
253 AGAGACAATGACAGACACCCTTGCTCCGGGAAAG-TTAGGATTATCTGAAACTGAAACTTTGATA
* * * *
5934084 CCCTTGAGCTTTGCTTTTGAGTGTTACGGGTTCTATATATTTTGTTCACAAAGTTGGAAAAATAT
317 CCTTTGAGCTATGCTTTTGAGTGTTACGGGTTCTATATCTTTTGTTCACTAAGTTGGAAAAATAT
* * * * *
5934149 GACCATCATTGCCTTTTTAGTCTTTCGAAGCTCAAAACACTTCCACTATCTAC--TTTCTTTGGC
382 GATCATCCTTTCCTTTTTAGTCTTTCGAAACTCAAAACACTTCCACTACCTACTATTTCTTTGGC
* * * * *
5934212 TTTTATATTTTGTTTTTTTTTTTGCACCTTAAAGCCTAAGAGTCTTACAAAAATGACTCAAAACT
447 TTTTATATTTTCTTCTTTTTTCTACACCTTAAAGCCTAAGAGTCTTACAAAAATAACTCAAAACT
* * * * * *
5934277 ATAATAATAATATTGACATGCCAGCACC--AATTTTTTTTTCATT-TATTGGTGCCACCCATTGA
512 GTAAAAATAATAATAACACGCCAGCACCAAAATTTTTTTTTC-TTGTACTGGTGCCACCCATTGA
*
5934339 CAGGTCAGCAC
576 CAGGCCAGCAC
* * *
5934350 CTAAATTATTTTTTTCGTGTACTGGTTTCTG-ATATTGACAAGCCAGCACTTAAAAAAAATTCTT
1 CTAAAAT-TTTTTTTCGTGTACTGGTTTCTGCA-ATTGACAAGCCAGCACTCAAAAAAAA----A
* * * * * *** *
5934414 TTCATTTACTGGTTCCGACAATTGACAGGCCAGCACCAACAAAAAAAAAATTTCTGTGTACTGGT
60 TTCATGTACTGGTGCCGGCCATTGACAGGCCAACA-CAA-AAAAAAATTTTTTCCGTGTACTGGT
* *
5934479 GCTGGCTTTAGAATATGTTATGTTAAATAAAATTTAGGGACTGTTGAGGAACTTTACCTTAAATT
123 GCTGGCTTTAGAATATGTAATGTTAAATAAAATTTAGGGACTGTTGATGAACTTTACCTTAAATT
* * **
5934544 AGTAATTTCAATTAAATTAGATTTTCTATTTTTTGTTCATACAGGTATGATTGTGAACAAAAAAC
188 AGTAATTTCAATTAAATCAGATTTTCTATTTTTAGTTCATACAGGTATGACAGTGAACAAAAAAC
* * * * *
5934609 AGAGACAAAATGACAAACGCCCTTGCTCCGGCAAAGTTAGGATTATCTAAAACTAAAACTAAAAC
253 AGAGAC--AATGACAGACACCCTTGCTCCGGGAAAGTTAGGATTA--T----CTGAAACTGAAAC
* * * * *
5934674 TTTGATACCTTTGAGCTATCCTTTTGAGTGTTATGGGTTCTATATCTTTTGTTTACTAAATAGG-
310 TTTGATACCTTTGAGCTATGCTTTTGAGTGTTACGGGTTCTATATCTTTTGTTCACTAAGTTGGA
* * *
5934738 AAAATATGATCAT-CTTTGTCTTTTTAGTCTTTCAAAACTCAAAACAC-TCCAATACCTACTATT
375 AAAATATGATCATCCTTT-CCTTTTTAGTCTTTCGAAACTCAAAACACTTCCACTACCTACTATT
* * *
5934801 T-TTTGGCTTTTATATTTTCTTTTTTTTTTCTACACCTTTAAGCCTAAGAGTCTTACAAAAATAG
439 TCTTTGGCTTTTATATTTTC-TTCTTTTTTCTACACCTTAAAGCCTAAGAGTCTTACAAAAATAA
* * * * *
5934865 CTTAAAACTGTAAAAATAATAATAAC-CGGCAGCA-CTAAATTTTTTTTTCTTGTACTGTTGCTA
503 CTCAAAACTGTAAAAATAATAATAACACGCCAGCACCAAAATTTTTTTTTCTTGTACTGGTGCCA
** * *
5934928 GACATTTACAAGCCAGCAC
568 CCCATTGACAGGCCAGCAC
**
5934947 CT-AAATTCTTTTTTCGTGTACTGGTTTCTGCAATTGTTATA-CCAGCACTCAAAAAAAAATTTC
1 CTAAAATT-TTTTTTCGTGTACTGGTTTCTGCAATTGACA-AGCCAGCACTCAAAAAAAAA-TTC
* * ** *
5935010 GTGTACTGGTACCGGCCATCCACAGGCCAGCA-AAAAAAAAAGTTTTTTCCGTGTACTGGTGCTG
63 ATGTACTGGTGCCGGCCATTGACAGGCCAACACAAAAAAAAA-TTTTTTCCGTGTACTGGTGCTG
* * * *
5935074 GCTTTAGAATATGTAATGCTAAATAAAATTTAGGGTCTGTTGATGAAATTTACCTTAAATTAGTT
127 GCTTTAGAATATGTAATGTTAAATAAAATTTAGGGACTGTTGATGAACTTTACCTTAAATTAGTA
* * *
5935139 ATTTTAATTAAATCAGATTTTCTATTTTTAGTTCATATAGGTATGACAGTGAACAAAAAATAGAG
192 ATTTCAATTAAATCAGATTTTCTATTTTTAGTTCATACAGGTATGACAGTGAACAAAAAACAGAG
* * *
5935204 ATAATGAAAGACACCCTTGCTCCGGGAAAGTTAAGATTATCTGAAACTGAAACTGAAACTTTGAT
257 ACAATGACAGACACCCTTGCTCCGGGAAAGTTAGGATTA--T----CTGAAACTGAAACTTTGAT
* * * *
5935269 AACTTTGAGCTATGCTTTTGAGTGTTACAGGTTCTATATCTTTTGTTTACTAAGTTGGGAAAATA
316 ACCTTTGAGCTATGCTTTTGAGTGTTACGGGTTCTATATCTTTTGTTCACTAAGTTGGAAAAATA
* * *
5935334 TGATCATCCTTTTCTTTTTAGTCTTTCGAAACTCAAAACACTTCCAGTACCTACTTTTTCTTTGG
381 TGATCATCCTTTCCTTTTTAGTCTTTCGAAACTCAAAACACTTCCACTACCTACTATTTCTTTGG
* * * ** *
5935399 CTCTTATATTTTCTTCTTTTTTCTACTCCTTAAAGCCTGAGAGTCTTACAAAAATGGCTTAAAAC
446 CTTTTATATTTTCTTCTTTTTTCTACACCTTAAAGCCTAAGAGTCTTACAAAAATAACTCAAAAC
* * * * **** *
5935464 TGTAAAAATAATAATAACCCACCACCACCCAAAATTTTGTTTTCTTGTACTGGTGTTGGCCATTT
511 TGTAAAAATAATAATAACACGCCAGCA-CCAAAATTTTTTTTTCTTGTACTGGTGCCACCCATTG
*
5935529 ACATGCCAGCAC
575 ACAGGCCAGCAC
** *
5935541 CTAAAATTTTTTTTAATGTACTGGTTTCTGCAATTGA-TAGACCAGCACTCAAAAAAAAATTCAT
1 CTAAAATTTTTTTTCGTGTACTGGTTTCTGCAATTGACAAG-CCAGCACTCAAAAAAAAATTCAT
* * ** * *
5935605 GTACTAGTGCAGGCCATCCACAAGCCAACACAAAAAAAAAGTTTTTTCCGTGTACTGGTGTTGGC
65 GTACTGGTGCCGGCCATTGACAGGCCAACACAAAAAAAAA-TTTTTTCCGTGTACTGGTGCTGGC
* * *
5935670 TTTAGAATTAT-TAATGTGAAATAAAATTTAGGGACTGTTGATGAACTTTACTTTAAATTAATAA
129 TTTAGAA-TATGTAATGTTAAATAAAATTTAGGGACTGTTGATGAACTTTACCTTAAATTAGTAA
* *
5935734 TTTCAATTAAATTAGATTTTCTATTTTTAGTTCATACAGGTTTGACAGTGAACAAAAAACAGAGA
193 TTTCAATTAAATCAGATTTTCTATTTTTAGTTCATACAGGTATGACAGTGAACAAAAAACAGAGA
* * *
5935799 CAATGACAGACACCCTT-ATTCGGGAAAAGTTAAGATTATCTGAAACTGAAACTTTGATACCTTT
258 CAATGACAGACACCCTTGCTCCGGG-AAAGTTAGGATTATCTGAAACTGAAACTTTGATACCTTT
* *
5935863 GAGCTTTGCTTTTGAGTGTTACGGGTTCTATATCTTTTGTTCACAAAGTTGGAAAAATATGATCA
322 GAGCTATGCTTTTGAGTGTTACGGGTTCTATATCTTTTGTTCACTAAGTTGGAAAAATATGATCA
* * *
5935928 TCCTTGCCCTTTTAGTCTTTCGAAACTCAAAACACTCCCACTACCTACTATTTCTTTGGCTTTTA
387 TCCTTTCCTTTTTAGTCTTTCGAAACTCAAAACACTTCCACTACCTACTATTTCTTTGGCTTTTA
* * *
5935993 TATTTTCTTCTTTTTTCTGCACCTTAAAGCCTAAGAGTCTTACAAAAATGACTCAAAACTGTAAT
452 TATTTTCTTCTTTTTTCTACACCTTAAAGCCTAAGAGTCTTACAAAAATAACTCAAAACTGTAAA
* * * ** * *
5936058 AATAATAATGACACGCCAGTACCCAAAA-TTTTTTGTAATATACTGGTGCCGCCCATTGACAGGC
517 AATAATAATAACACGCCAGCA-CCAAAATTTTTTTTTCTTGTACTGGTGCCACCCATTGACAGGC
*
5936122 CAGTAC
581 CAGCAC
* * *
5936128 CTAAAAAATTTTTTCTTCGTGTATTGGTTTCTGCTATTGACAAGGCAGCACTCAAAAAAAAATTC
1 CT--AAAATTTTTT-TTCGTGTACTGGTTTCTGCAATTGACAAGCCAGCACTCAAAAAAAAATTC
* * * * * * *
5936193 TTTTCGTTTACTGTTGCCGACCATTGA-ACGTCAATCACCAAAAAAATATTTTTTTTCGTGTACT
63 --AT-G--TACTGGTGCCGGCCATTGACAGGCCAA-CA-CAAAAAAA-AATTTTTTCCGTGTACT
* * * *
5936257 GGTGCTAGCTTTAAAATATGTAATGTTAAATAAAATTTTGGGACTGTTGATGAACTTTACCTAAA
120 GGTGCTGGCTTTAGAATATGTAATGTTAAATAAAATTTAGGGACTGTTGATGAACTTTACCTTAA
* *
5936322 ATTAGTAATTTCAATTAAATCACATTTTCTATTTTTAGTTCATACAGGTATGACAGTAAACAAAA
185 ATTAGTAATTTCAATTAAATCAGATTTTCTATTTTTAGTTCATACAGGTATGACAGTGAACAAAA
* *
5936387 AACAGAGGCAATGACAGACACCCTTGCTCCGGGAAACTTAGGATTATCTGAAACTGAAACTTTGA
250 AACAGAGACAATGACAGACACCCTTGCTCCGGGAAAGTTAGGATTATCTGAAACTGAAACTTTGA
* *
5936452 TACCCTTGAGCTTTGCTTTTGAGTGTTACGGGTTCTATATCTTTTGTTCA-TAAAGTTGGAAAAA
315 TACCTTTGAGCTATGCTTTTGAGTGTTACGGGTTCTATATCTTTTGTTCACT-AAGTTGGAAAAA
* * * *
5936516 TATGACCATCCTTCCCTTTTTAGTCTTTCGAAGCTCAAAACACTTCCACTACCTACTCTTTCTTT
379 TATGATCATCCTTTCCTTTTTAGTCTTTCGAAACTCAAAACACTTCCACTACCTACTATTTCTTT
** * * * *
5936581 GGCCCTTATATTTTGTT-TTTTTTTTGCACCTTAAAGTCTAAGAGTCTTACAAAAATAACTCAAA
444 GGCTTTTATATTTTCTTCTTTTTTCTACACCTTAAAGCCTAAGAGTCTTACAAAAATAACTCAAA
* * * ** * * *
5936645 AC--T-ATAATAATAATGACATGCCAGCACCAATTTTTTTTTTTCATT-TATTGGTGTCGCCCAT
509 ACTGTAAAAATAATAATAACACGCCAGCACCAAAATTTTTTTTTC-TTGTACTGGTGCCACCCAT
* *
5936706 TGACAGGCCAACAT
573 TGACAGGCCAGCAC
* * *
5936720 CTAATATTTTTTTTCGTGTACTGGTTTTTGCTATTGACAAGCCAGCACTCAAAAAAAAATCTTTT
1 CTAAAATTTTTTTTCGTGTACTGGTTTCTGCAATTGACAAGCCAGCACTCAAAAAAAAA----TT
* * * *
5936785 CATTTACTGGTGCCGGCTATTGATAGGCCAGAACCAACAAAAAAAAA----TTCTGTGTACTGGT
62 CATGTACTGGTGCCGGCCATTGACAGGCC--AA-C-ACAAAAAAAAATTTTTTCCGTGTACTGGT
* * *
5936846 GCTGGCTTTAGAATATGTATTGTTAAATAAAATTTAGAGACTGTTGATGAACTTTACCTTAATTT
123 GCTGGCTTTAGAATATGTAATGTTAAATAAAATTTAGGGACTGTTGATGAACTTTACCTTAAATT
* * *
5936911 AGTAATTTCAATTAAATCAGATTTTTTATTTTTCGTTCATACAGGTATGACAGTAAACAAAAAAC
188 AGTAATTTCAATTAAATCAGATTTTCTATTTTTAGTTCATACAGGTATGACAGTGAACAAAAAAC
*
5936976 AGAGACAAAATGACAGACACCCTTGCTCCGGGAAAGTTAGGATTATCTGAAATTAAAACTAAAAC
253 AGAGAC--AATGACAGACACCCTTGCTCCGGGAAAGTTAGGATTATCTG------AAACTGAAAC
* * *
5937041 TTTGATACCTTTGAGCTATCCTTTTGAGTGTTATGGGTTCTATATCTTTTGTTTACTAA-TATAG
310 TTTGATACCTTTGAGCTATGCTTTTGAGTGTTACGGGTTCTATATCTTTTGTTCACTAAGT-T-G
* * * * * *
5937105 G-AAAATATGATAATCTTTTTCTTTTTATTCTTTCGAAACTCAAAACAC-ACCTA-TACCTACTC
373 GAAAAATATGATCATCCTTTCCTTTTTAGTCTTTCGAAACTCAAAACACTTCC-ACTACCTACTA
* *
5937167 TTTTTTTGGCTTTTATATTTTCTTCTTTTTTCTACACCTTTAAGCCTAAGAGTCTTACAAAAATA
437 TTTCTTTGGCTTTTATATTTTCTTCTTTTTTCTACACCTTAAAGCCTAAGAGTCTTACAAAAATA
* * * * *
5937232 GCTTAAAACTGTAAAAATAATAATAAC-CGGCAGCACCAAAAATTTTTTGTTTCTTGTAATGTTG
502 ACTCAAAACTGTAAAAATAATAATAACACGCCAGCACC-AAAATTTTTT-TTTCTTGTACTGGTG
* * * *
5937296 CTAGCCATTTATAGGCCAGCAC
565 CCACCCATTGACAGGCCAGCAC
* * *
5937318 CT-AAATTTTTTTTCGTGTATTAGTTTCTG--A---A-AA---A--A-T----------TTCGTG
1 CTAAAATTTTTTTTCGTGTACTGGTTTCTGCAATTGACAAGCCAGCACTCAAAAAAAAATTCATG
* * ** * *
5937360 TATTGGTACCGGCCATCCACAGGCCAGCA-AAAAAAAAAGTTTTTTCCGTGTACTGGTGCTGACT
66 TACTGGTGCCGGCCATTGACAGGCCAACACAAAAAAAAA-TTTTTTCCGTGTACTGGTGCTGGCT
5937424 TTAGAATATGTAATGTTAAATAAAATTTAGGGACTGTTGATGAACTTTACCTTAAATTAGTAATT
130 TTAGAATATGTAATGTTAAATAAAATTTAGGGACTGTTGATGAACTTTACCTTAAATTAGTAATT
* * *
5937489 TCAATTAAATCAGATTTTCTATTTTTAGTTCATATAGGTATGACAGTGAACAAAAAACACAGATA
195 TCAATTAAATCAGATTTTCTATTTTTAGTTCATACAGGTATGACAGTGAACAAAAAACAGAGACA
* *
5937554 ATGAGAGACACCCTTGCTCCAGGAAAGTTAGGATTATCTGAAACTGAAACTGAAACTGAAACTTC
260 ATGACAGACACCCTTGCTCCGGGAAAGTTAGGATTA--T----CTGAAACTGAAACT-----TT-
* * * *
5937619 GATAACTTTGAGCTATGCTTTTGAGTGTTACAGGTTCTATATCTTTTGTTTACTAAGTTGGGAAA
313 GATACCTTTGAGCTATGCTTTTGAGTGTTACGGGTTCTATATCTTTTGTTCACTAAGTTGGAAAA
* * *
5937684 ATATGATCATCCTTGT-CTTTTTAGTCTTTCGAAACTCAAAACACTCCCAGTACCTACTCTTTCT
378 ATATGATCATCCTT-TCCTTTTTAGTCTTTCGAAACTCAAAACACTTCCACTACCTACTATTTCT
* * ** *
5937748 TTGGCTCTTATATTTTCTTCTTTTTTCTACTCCTTAAAGCCTAAGAGTCTTACAAAAATGGCTTA
442 TTGGCTTTTATATTTTCTTCTTTTTTCTACACCTTAAAGCCTAAGAGTCTTACAAAAATAACTCA
* * ***
5937813 AAACTGT---AATAATAATAACCCGCCACCACCCAAAATTTTTTTTTCTTGTACTGGTGCTGGCC
507 AAACTGTAAAAATAATAATAACACGCCAGCA-CCAAAATTTTTTTTTCTTGTACTGGTGCCACCC
* *
5937875 ATTTACAAGCCAGCAC
571 ATTGACAGGCCAGCAC
* * * *
5937891 CTAAACTTTTTTTTTCGTGTACTGGTTTCTGCAATTGATAGGTCAGCACTCAAAAAAAAA-TCAT
1 CTAAA-ATTTTTTTTCGTGTACTGGTTTCTGCAATTGACAAGCCAGCACTCAAAAAAAAATTCAT
* * ** * *
5937955 GTACTAGTGCAGGCCATCCACAGGCCAGCACAAAATAAAAGTTTTTTCCGTGTACTGGTGCTGGC
65 GTACTGGTGCCGGCCATTGACAGGCCAACACAAAA-AAAAATTTTTTCCGTGTACTGGTGCTGGC
*
5938020 TTTAGAATATATAATGTTAAATAAAATTTAGGGACTGTTGATGAACTTTACCTTAAATTAGT-AT
129 TTTAGAATATGTAATGTTAAATAAAATTTAGGGACTGTTGATGAACTTTACCTTAAATTAGTAAT
* * *
5938084 TTCCAATTAAATTAGATTTTCTATTTTTAGTTCATACAGGTATTACAGTGAACAAAAAATAGAGA
194 TT-CAATTAAATCAGATTTTCTATTTTTAGTTCATACAGGTATGACAGTGAACAAAAAACAGAGA
* *
5938149 CAATGACAGACACCCTTGCTCCGGGAAAGATT-GGATTATCTGAAATTGAAACTTTGATACCCTT
258 CAATGACAGACACCCTTGCTCCGGGAAAG-TTAGGATTATCTGAAACTGAAACTTTGATACCTTT
* *
5938213 GAGCTTTGCTTTTGAGTGTTACGGGTTCTATATCTTTTGTTCACAAAGTTGGAAAAATATGATCA
322 GAGCTATGCTTTTGAGTGTTACGGGTTCTATATCTTTTGTTCACTAAGTTGGAAAAATATGATCA
* * * * *
5938278 TTCTTGCCTTTTTAATCTTTTGAAACTCAAAACAC-TCCTACTACCTACTCTTTCTTTGGCTTTT
387 TCCTTTCCTTTTTAGTCTTTCGAAACTCAAAACACTTCC-ACTACCTACTATTTCTTTGGCTTTT
* * * * * *
5938342 ATATTTTGTTCTTTTTTTTTGCACCTTAAAGCCTAAGAGTATTACAAAAATGACTCAAAACTATA
451 ATATTTTCTTC-TTTTTTCTACACCTTAAAGCCTAAGAGTCTTACAAAAATAACTCAAAACTGT-
* * * * * *
5938407 ATAATAATAATAATAATGACATGCCAGCGCCAAATTTTTTTTTTCATGTACTAGTGCCGCCCATT
514 A-AA-AATAATAAT-A--ACACGCCAGCACCAAAATTTTTTTTTCTTGTACTGGTGCCACCCATT
*
5938472 GACAGGCTAGCAC
574 GACAGGCCAGCAC
* *
5938485 CTAAAATTTTTTTTTCGTGTACTGGTTTCTGCTATTGACAAGCCAGCCCTC-AAAAAAAATTCTT
1 CTAAAA-TTTTTTTTCGTGTACTGGTTTCTGCAATTGACAAGCCAGCACTCAAAAAAAAATTC--
* * ** * *
5938549 TTTGTTTATTGGTGCCGGTTATTGACAGGCCAGCACCAACAAAAAAA--ATTT-CGTGTACTGGT
63 -ATG--TACTGGTGCCGGCCATTGACAGGCCAACA-CAA-AAAAAAATTTTTTCCGTGTACTGGT
* * *
5938611 GCTGGCTTTAAAATATGTAATGTTAAAGAAAATTTAGGGACTGTAGATGAACTTTACCTTAAATT
123 GCTGGCTTTAGAATATGTAATGTTAAATAAAATTTAGGGACTGTTGATGAACTTTACCTTAAATT
* *
5938676 AGTAATTTCAATTAAATTAGATTTTCTATTTTTCGTTCATACAGGTATGACAGTGAACAAAAAAC
188 AGTAATTTCAATTAAATCAGATTTTCTATTTTTAGTTCATACAGGTATGACAGTGAACAAAAAAC
*
5938741 AGAGACAATGACAAACACCCTTGCTCCGGGAAAGTTAGGATTATCTGAAACTGAAACTGAAACTT
253 AGAGACAATGACAGACACCCTTGCTCCGGGAAAGTTAGGATTA--T----CTGAAACTGAAACTT
* * *
5938806 TGATACCTTTGAGCTTTGCTTTTGAATGTTACGGGTTCTATATCTTTTGTTCACAAAGTTGGAAA
312 TGATACCTTTGAGCTATGCTTTTGAGTGTTACGGGTTCTATATCTTTTGTTCACTAAGTTGGAAA
* * * * * * * *
5938871 AATATGATCATCCTTGCATTTTTAGTTTTTCAAAACTCAAAACCCTCCCACTACTTACTCTTTCT
377 AATATGATCATCCTTTCCTTTTTAGTCTTTCGAAACTCAAAACACTTCCACTACCTACTATTTCT
* * * *
5938936 TTGGCTTTTATATTTTCTTCTTTTTTCTGCACCTTAAAGCCTAAAAGTCTTACAAAAATGACTCG
442 TTGGCTTTTATATTTTCTTCTTTTTTCTACACCTTAAAGCCTAAGAGTCTTACAAAAATAACTCA
* * *
5939001 AAACTGT---AATAATAATGACACGCCAGCACCTAAATTTTTTTTTCATGTACTGGT
507 AAACTGTAAAAATAATAATAACACGCCAGCACCAAAATTTTTTTTTCTTGTACTGGT
5939055 TTCTACTATT
Statistics
Matches: 4063, Mismatches: 473, Indels: 333
0.83 0.10 0.07
Matches are distributed among these distances:
566 9 0.00
567 1 0.00
568 1 0.00
569 46 0.01
571 163 0.04
573 46 0.01
574 22 0.01
575 123 0.03
576 85 0.02
577 1 0.00
580 1 0.00
581 1 0.00
584 3 0.00
585 131 0.03
586 186 0.05
587 35 0.01
588 318 0.08
589 350 0.09
590 101 0.02
591 287 0.07
592 91 0.02
593 145 0.04
594 499 0.12
595 98 0.02
596 486 0.12
597 565 0.14
598 39 0.01
599 23 0.01
600 7 0.00
601 2 0.00
602 47 0.01
603 149 0.04
604 2 0.00
ACGTcount: A:0.32, C:0.17, G:0.15, T:0.36
Consensus pattern (586 bp):
CTAAAATTTTTTTTCGTGTACTGGTTTCTGCAATTGACAAGCCAGCACTCAAAAAAAAATTCATG
TACTGGTGCCGGCCATTGACAGGCCAACACAAAAAAAAATTTTTTCCGTGTACTGGTGCTGGCTT
TAGAATATGTAATGTTAAATAAAATTTAGGGACTGTTGATGAACTTTACCTTAAATTAGTAATTT
CAATTAAATCAGATTTTCTATTTTTAGTTCATACAGGTATGACAGTGAACAAAAAACAGAGACAA
TGACAGACACCCTTGCTCCGGGAAAGTTAGGATTATCTGAAACTGAAACTTTGATACCTTTGAGC
TATGCTTTTGAGTGTTACGGGTTCTATATCTTTTGTTCACTAAGTTGGAAAAATATGATCATCCT
TTCCTTTTTAGTCTTTCGAAACTCAAAACACTTCCACTACCTACTATTTCTTTGGCTTTTATATT
TTCTTCTTTTTTCTACACCTTAAAGCCTAAGAGTCTTACAAAAATAACTCAAAACTGTAAAAATA
ATAATAACACGCCAGCACCAAAATTTTTTTTTCTTGTACTGGTGCCACCCATTGACAGGCCAGCA
C
Found at i:5936472 original size:596 final size:592
Alignment explanation
Indices: 5933762--5937346 Score: 4204
Period size: 596 Copynumber: 6.1 Consensus size: 592
5933752 CTTTTGTTCA
* * * **
5933762 CTAAATTTTTTTTTTGTGTATTGGTTTCTGCTAATT-ACAAGCCAATACTCAAAAAAAAATTCTT
1 CTAAAATTTTTTTTCGTGTACTGGTTTCTGCT-ATTGACAAGCCAGCACTCAAAAAAAAATTCTT
* ***
5933826 TTCGTTTACTGGTACCGACCATTG-ACAGGCAATCACC--AAAAATTTTTTTTTTCCGTGTACTG
65 TTCGTTTACTGGTGCCGACCATTGAACAGGCAA-CACCAAAAAAAAAGTTTTTTT-CGTGTACTG
*
5933888 GTGCTGGCTTTAGAATATGTAATGTTAAATAAAATTTAGGGACTGTTGATGAATTTTACCTTAAA
128 GTGCTGGCTTTAGAATATGTAATGTTAAATAAAATTTAGGGACTGTTGATGAACTTTACCTTAAA
* *
5933953 TTAGTAATTTTAATTAAATCAGATTTTCAATTTTTAGTTCATACAGGTATGACAGTGAACAAAAA
193 TTAGTAATTTCAATTAAATCAGATTTTCTATTTTTAGTTCATACAGGTATGACAGTGAACAAAAA
5934018 ACAGAGACAATGACAGACACCCTTGCTCCGGGAAAGATT-GGATTATCTGAAACTGAAACTTTGA
258 ACAGAGACAATGACAGACACCCTTGCTCCGGGAAAG-TTAGGATTATCTGAAACTGAAACTTTGA
* * *
5934082 TACCCTTGAGCTTTGCTTTTGAGTGTTACGGGTTCTATATATTTTGTTCACAAAGTTGGAAAAAT
322 TACCTTTGAGCTATGCTTTTGAGTGTTACGGGTTCTATATCTTTTGTTCACAAAGTTGGAAAAAT
* * * *
5934147 ATGACCATCATTGCCTTTTTAGTCTTTCGAAGCTCAAAACACTTCCACTATCTAC--TTTCTTTG
387 ATGATCATCCTTGCCTTTTTAGTCTTTCGAAACTCAAAACACTTCCACTACCTACTATTTCTTTG
* * * *
5934210 GCTTTTATATTTTGTTTTTTTTTTTGCACCTTAAAGCCTAAGAGTCTTACAAAAATGACTCAAAA
452 GCTTTTATATTTTCTTCTTTTTTCTACACCTTAAAGCCTAAGAGTCTTACAAAAATGACTCAAAA
* * * * * * * * *
5934275 CTATAATAATAATATTGACATGCCAGCACC-AATTTTTTTTTCATTTATTGGTGCCACCCATTGA
517 CTGTAAAAATAATAATAACACGCCAGCACCAAAATTTTTTTTCATGTACTGGTGCCGCCCATTGA
*
5934339 CAGGTCAGCAC
582 CAGGCCAGCAC
* * *
5934350 CTAAATTATTTTTTTCGTGTACTGGTTTCTGATATTGACAAGCCAGCACT-TAAAAAAAATTCTT
1 CTAAAAT-TTTTTTTCGTGTACTGGTTTCTGCTATTGACAAGCCAGCACTCAAAAAAAAATTCTT
* * * * *** *
5934414 TTCATTTACTGGTTCCGACAATTG-ACAGGCCAGCACCAACAAAAAAAAAATTTCT-GTGTACTG
65 TTCGTTTACTGGTGCCGACCATTGAACAGG-CAACACCAA-AAAAAAAGTTTTTTTCGTGTACTG
* *
5934477 GTGCTGGCTTTAGAATATGTTATGTTAAATAAAATTTAGGGACTGTTGAGGAACTTTACCTTAAA
128 GTGCTGGCTTTAGAATATGTAATGTTAAATAAAATTTAGGGACTGTTGATGAACTTTACCTTAAA
* * **
5934542 TTAGTAATTTCAATTAAATTAGATTTTCTATTTTTTGTTCATACAGGTATGATTGTGAACAAAAA
193 TTAGTAATTTCAATTAAATCAGATTTTCTATTTTTAGTTCATACAGGTATGACAGTGAACAAAAA
* * * * *
5934607 ACAGAGACAAAATGACAAACGCCCTTGCTCCGGCAAAGTTAGGATTATCTAAAACTAAAACTAAA
258 ACAGAGAC--AATGACAGACACCCTTGCTCCGGGAAAGTTAGGATTA--T----CTGAAACTGAA
* * * *
5934672 ACTTTGATACCTTTGAGCTATCCTTTTGAGTGTTATGGGTTCTATATCTTTTGTTTACTAAA-TA
315 ACTTTGATACCTTTGAGCTATGCTTTTGAGTGTTACGGGTTCTATATCTTTTGTTCAC-AAAGTT
* * * *
5934736 GG-AAAATATGATCATCTTTGTCTTTTTAGTCTTTCAAAACTCAAAACAC-TCCAATACCTACTA
379 GGAAAAATATGATCATCCTTGCCTTTTTAGTCTTTCGAAACTCAAAACACTTCCACTACCTACTA
* *
5934799 TTT-TTTGGCTTTTATATTTTCTTTTTTTTTTCTACACCTTTAAGCCTAAGAGTCTTACAAAAAT
444 TTTCTTTGGCTTTTATATTTTC-TTCTTTTTTCTACACCTTAAAGCCTAAGAGTCTTACAAAAAT
* * * * * *
5934863 -AGCTTAAAACTGTAAAAATAATAATAAC-CGGCAGCACTAAATTTTTTTTTCTTGTACTGTTGC
508 GA-CTCAAAACTGTAAAAATAATAATAACACGCCAGCACCAAAATTTTTTTTCATGTACTGGTGC
* * * *
5934926 TAG-ACATTTACAAGCCAGCAC
572 -CGCCCATTGACAGGCCAGCAC
* **
5934947 CT-AAATTCTTTTTTCGTGTACTGGTTTCTGCAATTGTTATA-CCAGCACTCAAAAAAAAA----
1 CTAAAATT-TTTTTTCGTGTACTGGTTTCTGCTATTGACA-AGCCAGCACTCAAAAAAAAATTCT
* * * ** * *
5935006 TTTCGTGTACTGGTACCGGCCA-TCCACAGGC--CAGCAAAAAAAAAAGTTTTTTCCGTGTACTG
64 TTTCGTTTACTGGTGCCGACCATTGAACAGGCAACA-CCAAAAAAAAAGTTTTTTTCGTGTACTG
* * *
5935068 GTGCTGGCTTTAGAATATGTAATGCTAAATAAAATTTAGGGTCTGTTGATGAAATTTACCTTAAA
128 GTGCTGGCTTTAGAATATGTAATGTTAAATAAAATTTAGGGACTGTTGATGAACTTTACCTTAAA
* * *
5935133 TTAGTTATTTTAATTAAATCAGATTTTCTATTTTTAGTTCATATAGGTATGACAGTGAACAAAAA
193 TTAGTAATTTCAATTAAATCAGATTTTCTATTTTTAGTTCATACAGGTATGACAGTGAACAAAAA
* * * *
5935198 ATAGAGATAATGAAAGACACCCTTGCTCCGGGAAAGTTAAGATTATCTGAAACTGAAACTGAAAC
258 ACAGAGACAATGACAGACACCCTTGCTCCGGGAAAGTTAGGATTA--T----CTGAAACTGAAAC
* * * * *
5935263 TTTGATAACTTTGAGCTATGCTTTTGAGTGTTACAGGTTCTATATCTTTTGTTTACTAAGTTGGG
317 TTTGATACCTTTGAGCTATGCTTTTGAGTGTTACGGGTTCTATATCTTTTGTTCACAAAGTTGGA
** * *
5935328 AAAATATGATCATCCTTTTCTTTTTAGTCTTTCGAAACTCAAAACACTTCCAGTACCTACTTTTT
382 AAAATATGATCATCCTTGCCTTTTTAGTCTTTCGAAACTCAAAACACTTCCACTACCTACTATTT
* * * *
5935393 CTTTGGCTCTTATATTTTCTTCTTTTTTCTACTCCTTAAAGCCTGAGAGTCTTACAAAAATGGCT
447 CTTTGGCTTTTATATTTTCTTCTTTTTTCTACACCTTAAAGCCTAAGAGTCTTACAAAAATGACT
* * * * * ** *
5935458 TAAAACTGTAAAAATAATAATAACCCACCACCACCCAAAATTTTGTTTTCTTGTACTGGTGTTGG
512 CAAAACTGTAAAAATAATAATAACACGCCAGCA-CCAAAATTTT-TTTTCATGTACTGGTGCCGC
* *
5935523 CCATTTACATGCCAGCAC
575 CCATTGACAGGCCAGCAC
** * *
5935541 CTAAAATTTTTTTTAATGTACTGGTTTCTGCAATTGA-TAGACCAGCACTCAAAAAAAAATTC--
1 CTAAAATTTTTTTTCGTGTACTGGTTTCTGCTATTGACAAG-CCAGCACTCAAAAAAAAATTCTT
* * * * ** * *
5935603 AT-G--TACTAGTGCAGGCCA-TCCACAAGCCAACA-CAAAAAAAAAGTTTTTTCCGTGTACTGG
65 TTCGTTTACTGGTGCCGACCATTGAAC-AGGCAACACCAAAAAAAAAGTTTTTTTCGTGTACTGG
* * *
5935663 TGTTGGCTTTAGAATTAT-TAATGTGAAATAAAATTTAGGGACTGTTGATGAACTTTACTTTAAA
129 TGCTGGCTTTAGAA-TATGTAATGTTAAATAAAATTTAGGGACTGTTGATGAACTTTACCTTAAA
* * *
5935727 TTAATAATTTCAATTAAATTAGATTTTCTATTTTTAGTTCATACAGGTTTGACAGTGAACAAAAA
193 TTAGTAATTTCAATTAAATCAGATTTTCTATTTTTAGTTCATACAGGTATGACAGTGAACAAAAA
* * *
5935792 ACAGAGACAATGACAGACACCCTT-ATTCGGGAAAAGTTAAGATTATCTGAAACTGAAACTTTGA
258 ACAGAGACAATGACAGACACCCTTGCTCCGGG-AAAGTTAGGATTATCTGAAACTGAAACTTTGA
*
5935856 TACCTTTGAGCTTTGCTTTTGAGTGTTACGGGTTCTATATCTTTTGTTCACAAAGTTGGAAAAAT
322 TACCTTTGAGCTATGCTTTTGAGTGTTACGGGTTCTATATCTTTTGTTCACAAAGTTGGAAAAAT
* *
5935921 ATGATCATCCTTGCCCTTTTAGTCTTTCGAAACTCAAAACACTCCCACTACCTACTATTTCTTTG
387 ATGATCATCCTTGCCTTTTTAGTCTTTCGAAACTCAAAACACTTCCACTACCTACTATTTCTTTG
*
5935986 GCTTTTATATTTTCTTCTTTTTTCTGCACCTTAAAGCCTAAGAGTCTTACAAAAATGACTCAAAA
452 GCTTTTATATTTTCTTCTTTTTTCTACACCTTAAAGCCTAAGAGTCTTACAAAAATGACTCAAAA
* * * * * *
5936051 CTGTAATAATAATAATGACACGCCAGTACCCAAAATTTTTTGTAATATACTGGTGCCGCCCATTG
517 CTGTAAAAATAATAATAACACGCCAGCA-CCAAAATTTTTTTTCATGTACTGGTGCCGCCCATTG
*
5936116 ACAGGCCAGTAC
581 ACAGGCCAGCAC
* *
5936128 CTAAAAAATTTTTTCTTCGTGTATTGGTTTCTGCTATTGACAAGGCAGCACTCAAAAAAAAATTC
1 CT--AAAATTTTTT-TTCGTGTACTGGTTTCTGCTATTGACAAGCCAGCACTCAAAAAAAAATTC
* * * *
5936193 TTTTCGTTTACTGTTGCCGACCATTGAAC-GTCAATCACCAAAAAAATATTTTTTTTCGTGTACT
63 TTTTCGTTTACTGGTGCCGACCATTGAACAGGCAA-CACCAAAAAAAAAGTTTTTTTCGTGTACT
* * * *
5936257 GGTGCTAGCTTTAAAATATGTAATGTTAAATAAAATTTTGGGACTGTTGATGAACTTTACCTAAA
127 GGTGCTGGCTTTAGAATATGTAATGTTAAATAAAATTTAGGGACTGTTGATGAACTTTACCTTAA
* *
5936322 ATTAGTAATTTCAATTAAATCACATTTTCTATTTTTAGTTCATACAGGTATGACAGTAAACAAAA
192 ATTAGTAATTTCAATTAAATCAGATTTTCTATTTTTAGTTCATACAGGTATGACAGTGAACAAAA
* *
5936387 AACAGAGGCAATGACAGACACCCTTGCTCCGGGAAACTTAGGATTATCTGAAACTGAAACTTTGA
257 AACAGAGACAATGACAGACACCCTTGCTCCGGGAAAGTTAGGATTATCTGAAACTGAAACTTTGA
* * *
5936452 TACCCTTGAGCTTTGCTTTTGAGTGTTACGGGTTCTATATCTTTTGTTCATAAAGTTGGAAAAAT
322 TACCTTTGAGCTATGCTTTTGAGTGTTACGGGTTCTATATCTTTTGTTCACAAAGTTGGAAAAAT
* * * *
5936517 ATGACCATCCTTCCCTTTTTAGTCTTTCGAAGCTCAAAACACTTCCACTACCTACTCTTTCTTTG
387 ATGATCATCCTTGCCTTTTTAGTCTTTCGAAACTCAAAACACTTCCACTACCTACTATTTCTTTG
** * * * * *
5936582 GCCCTTATATTTTGTT-TTTTTTTTGCACCTTAAAGTCTAAGAGTCTTACAAAAATAACTCAAAA
452 GCTTTTATATTTTCTTCTTTTTTCTACACCTTAAAGCCTAAGAGTCTTACAAAAATGACTCAAAA
* * * ** * * *
5936646 C--T-ATAATAATAATGACATGCCAGCACCAATTTTTTTTTTTCATTTATTGGTGTCGCCCATTG
517 CTGTAAAAATAATAATAACACGCCAGCACCAA-AATTTTTTTTCATGTACTGGTGCCGCCCATTG
* *
5936708 ACAGGCCAACAT
581 ACAGGCCAGCAC
* *
5936720 CTAATATTTTTTTTCGTGTACTGGTTTTTGCTATTGACAAGCCAGCACTCAAAAAAAAA-TCTTT
1 CTAAAATTTTTTTTCGTGTACTGGTTTCTGCTATTGACAAGCCAGCACTCAAAAAAAAATTCTTT
* * * * ** *
5936784 TCATTTACTGGTGCCGGCTATTG-ATAGGCCAGA-ACCAACAAAAAAA--AATTCT-GTGTACTG
66 TCGTTTACTGGTGCCGACCATTGAACAGG-CA-ACACCAA-AAAAAAAGTTTTTTTCGTGTACTG
* * *
5936844 GTGCTGGCTTTAGAATATGTATTGTTAAATAAAATTTAGAGACTGTTGATGAACTTTACCTTAAT
128 GTGCTGGCTTTAGAATATGTAATGTTAAATAAAATTTAGGGACTGTTGATGAACTTTACCTTAAA
* * *
5936909 TTAGTAATTTCAATTAAATCAGATTTTTTATTTTTCGTTCATACAGGTATGACAGTAAACAAAAA
193 TTAGTAATTTCAATTAAATCAGATTTTCTATTTTTAGTTCATACAGGTATGACAGTGAACAAAAA
*
5936974 ACAGAGACAAAATGACAGACACCCTTGCTCCGGGAAAGTTAGGATTATCTGAAATTAAAACTAAA
258 ACAGAGAC--AATGACAGACACCCTTGCTCCGGGAAAGTTAGGATTATCTG------AAACTGAA
* * *
5937039 ACTTTGATACCTTTGAGCTATCCTTTTGAGTGTTATGGGTTCTATATCTTTTGTTTACTAATA-T
315 ACTTTGATACCTTTGAGCTATGCTTTTGAGTGTTACGGGTTCTATATCTTTTGTTCAC-AA-AGT
* * * ** * *
5937103 AGG-AAAATATGATAATCTTTTTCTTTTTATTCTTTCGAAACTCAAAACAC-ACCTA-TACCTAC
378 TGGAAAAATATGATCATCCTTGCCTTTTTAGTCTTTCGAAACTCAAAACACTTCC-ACTACCTAC
* * *
5937165 TCTTTTTTTGGCTTTTATATTTTCTTCTTTTTTCTACACCTTTAAGCCTAAGAGTCTTACAAAAA
442 TATTTCTTTGGCTTTTATATTTTCTTCTTTTTTCTACACCTTAAAGCCTAAGAGTCTTACAAAAA
* * * *
5937230 T-AGCTTAAAACTGTAAAAATAATAATAAC-CGGCAGCACCAAAAATTTTTTGTTTCTTGTAATG
507 TGA-CTCAAAACTGTAAAAATAATAATAACACGCCAGCACC-AAAA-TTTTT-TTTCATGTACTG
* * * *
5937293 TTGCTAG-CCATTTATAGGCCAGCAC
568 GTGC-CGCCCATTGACAGGCCAGCAC
* *
5937318 CT-AAATTTTTTTTCGTGTATTAGTTTCTG
1 CTAAAATTTTTTTTCGTGTACTGGTTTCTG
5937347 AAAAAATTTC
Statistics
Matches: 2585, Mismatches: 325, Indels: 165
0.84 0.11 0.05
Matches are distributed among these distances:
586 135 0.05
587 34 0.01
588 353 0.14
589 338 0.13
590 109 0.04
591 260 0.10
592 84 0.03
593 88 0.03
594 400 0.15
595 87 0.03
596 447 0.17
597 219 0.08
598 30 0.01
599 1 0.00
ACGTcount: A:0.32, C:0.17, G:0.14, T:0.37
Consensus pattern (592 bp):
CTAAAATTTTTTTTCGTGTACTGGTTTCTGCTATTGACAAGCCAGCACTCAAAAAAAAATTCTTT
TCGTTTACTGGTGCCGACCATTGAACAGGCAACACCAAAAAAAAAGTTTTTTTCGTGTACTGGTG
CTGGCTTTAGAATATGTAATGTTAAATAAAATTTAGGGACTGTTGATGAACTTTACCTTAAATTA
GTAATTTCAATTAAATCAGATTTTCTATTTTTAGTTCATACAGGTATGACAGTGAACAAAAAACA
GAGACAATGACAGACACCCTTGCTCCGGGAAAGTTAGGATTATCTGAAACTGAAACTTTGATACC
TTTGAGCTATGCTTTTGAGTGTTACGGGTTCTATATCTTTTGTTCACAAAGTTGGAAAAATATGA
TCATCCTTGCCTTTTTAGTCTTTCGAAACTCAAAACACTTCCACTACCTACTATTTCTTTGGCTT
TTATATTTTCTTCTTTTTTCTACACCTTAAAGCCTAAGAGTCTTACAAAAATGACTCAAAACTGT
AAAAATAATAATAACACGCCAGCACCAAAATTTTTTTTCATGTACTGGTGCCGCCCATTGACAGG
CCAGCAC
Found at i:5937602 original size:6 final size:6
Alignment explanation
Indices: 5937591--5937616 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
5937581 TTAGGATTAT
5937591 CTGAAA CTGAAA CTGAAA CTGAAA CT
1 CTGAAA CTGAAA CTGAAA CTGAAA CT
5937617 TCGATAACTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.46, C:0.19, G:0.15, T:0.19
Consensus pattern (6 bp):
CTGAAA
Found at i:5940508 original size:588 final size:585
Alignment explanation
Indices: 5939016--5941168 Score: 3146
Period size: 585 Copynumber: 3.7 Consensus size: 585
5939006 GTAATAATAA
* * *
5939016 TGACACGCCAGCACCTAAATTTTTTTTTCATGTACTGGTTTCTACTATTGACAAGCCAGCACTCA
1 TGACAGGCCAGCACCTAAATTTTTTTTTCGTGTACTGGTTTCTGCTATTGACAAGCCAGCACTCA
* * *
5939081 AAAAAAAATTCTTTTCGTTTACTGGTGCCGGCCATTGAAATGCCATCTCCAAAAAAATATTTTTT
66 AAAAAAAA----TTTCGTTTACTGGTGCCGGCCATTGAAAGGCAATCACC---AAAA-A--TTTT
*
5939146 TTTTCCGTGTACTGGTGCTGGCTTTAGAATATGTAATGTGAAATAAAATTTTGGGACTGTTGATG
121 TTTTCCGTGTACTGGTGCTAGCTTTAGAATATGTAATGTGAAATAAAATTTTGGGACTGTTGATG
** *
5939211 AGTTTTACCTTAAATTAGTAATTTCAATTAAATCAAATTTTCTATTTTTAGTTCATACAGGTATG
186 AACTTTACCTTAAATTAGTAATTTCAATTAAATCAGATTTTCTATTTTTAGTTCATACAGGTATG
5939276 ACAGTGAACAAAAAACAGAGACAATGACAGACACCCTTGCTCCGGGAAAGTTAGGATTATCTGAA
251 ACAGTGAACAAAAAACAGAGACAATGACAGACACCCTTGCTCCGGGAAAGTTAGGATTATCTGAA
* **
5939341 ACTGAAACTTTGATACCTTTGAGCTTTGGTTTTTTGTGTTACGGGTTCTATATCTTTTGTTCACA
316 ACTGAAACTTTGATACCTTTGAGCTTTGCTTTTGAGTGTTACGGGTTCTATATCTTTTGTTCACA
5939406 AAGTTGGAAAAATATGATCATCCTTACCTTTTTAGTATTTCGAAACTCAAAACACTCCCACTACC
381 AAGTTGGAAAAATATGATCATCCTTACCTTTTTAGTATTTCGAAACTCAAAACACTCCCACTACC
* * *
5939471 TACTCTTTCTTTGGCTTTTATATTTTGTT-CTTTTTTTGCACCTTAAAGCCTTAGAGTCTTACAA
446 TACTCTTTCTTTGGCTTTTATATTTTCTTCCTTTTTCTGCACCTTAAAGCCTAAGAGTCTTACAA
* * *
5939535 AAATGACTCAAAAC--TATAATAATAATGACATGCCAGCA-AC-AATTTTTTGTTTCAAGTACTG
511 AAATGACTCAAAACTGTATAATAATAATGACACGCCAGCACCCAAATTTTTT-TTTCATGTACTG
5939596 GTGCCGCCCAT
575 GTGCCGCCCAT
* * * * *
5939607 TGATAGGCTAGCACCTAAAATTTTTTTTTCGTGTACTGGTTTCTGCAATTGATAGGCCAGCACTC
1 TGACAGGCCAGCACCT-AAATTTTTTTTTCGTGTACTGGTTTCTGCTATTGACAAGCCAGCACTC
* * * ** * * **
5939672 AAAAAAAAA-TTCATGTACTAGTGCCGGCCATCCACAGGCCAA-CACAAAAAAAAAAAGTTTTTT
65 AAAAAAAAATTTCGTTTACTGGTGCCGGCCATTGAAAGG-CAATCAC----CAAAAATTTTTTTT
* * * * *
5939735 CCGTGTACTGATGCTGGCTTTAGAATATGTAATATGAAATAAAATTTAGGAACTGTTGATGAACT
125 CCGTGTACTGGTGCTAGCTTTAGAATATGTAATGTGAAATAAAATTTTGGGACTGTTGATGAACT
* * *
5939800 TTACCTTAAATTAATAATTTCAATTAAATTAGATTTTCTATTTTTAGTTCATACAGGTTTGACAG
190 TTACCTTAAATTAGTAATTTCAATTAAATCAGATTTTCTATTTTTAGTTCATACAGGTATGACAG
* * * *
5939865 TGAACAAAAAACAGAGACAATGATAGACACCTTTACTCGGGGAAAGTTAGGATTATCTGAAACTG
255 TGAACAAAAAACAGAGACAATGACAGACACCCTTGCTCCGGGAAAGTTAGGATTATCTGAAACTG
* *
5939930 AAACTTTGATACCTTTGAGCTTTGCTTTTGATTGTTATGGGTTCTATATCTTTTGTTCACAAAGT
320 AAACTTTGATACCTTTGAGCTTTGCTTTTGAGTGTTACGGGTTCTATATCTTTTGTTCACAAAGT
*
5939995 TGGAAAAATATGATCATCCTTGCCTTTTTAGTATTTCGAAACTCAAAACACTCCCACTACCTACT
385 TGGAAAAATATGATCATCCTTACCTTTTTAGTATTTCGAAACTCAAAACACTCCCACTACCTACT
5940060 CTTTCTTTGGCTTTTATATTTTCTTCCTTTTTCTGCACCTTAAAGCCTAAGAGTCTTACAAAAAT
450 CTTTCTTTGGCTTTTATATTTTCTTCCTTTTTCTGCACCTTAAAGCCTAAGAGTCTTACAAAAAT
* * *
5940125 AACTCAAAACTGTAATAATAATAATGACACGCCAGCACCCAAAATTTTTTTTCATGTACTGGTGT
515 GACTCAAAACTGT-ATAATAATAATGACACGCCAGCACCCAAATTTTTTTTTCATGTACTGGTGC
5940190 CGCCCAT
579 CGCCCAT
* * *
5940197 TGACAGGCCAGTACCTAAAATTTTTTTTCTTCGTGTACTTGTTTCTGCTATTGACAAGGCAGCAC
1 TGACAGGCCAGCACCT-AAA-TTTTTTT-TTCGTGTACTGGTTTCTGCTATTGACAAGCCAGCAC
* * *
5940262 TCAAAAAAAAATTTCGTTTACTGGTGCCGGCCATTAAAAGGCAAGCACC-AAATTTTTTTTTCCG
63 TCAAAAAAAAATTTCGTTTACTGGTGCCGGCCATTGAAAGGCAATCACCAAAAATTTTTTTTCCG
* *
5940326 TGTATTGGTGCTAGCTTTAGAATATGTAATGTTAAATAAAATTTTGGGACTGTTGATGAACTTTA
128 TGTACTGGTGCTAGCTTTAGAATATGTAATGTGAAATAAAATTTTGGGACTGTTGATGAACTTTA
*
5940391 CCTTAAATTAGTAATTTCAATTAAATCAGATTTTCTATTTTTAGTTCATACAGGTATGACAGTAA
193 CCTTAAATTAGTAATTTCAATTAAATCAGATTTTCTATTTTTAGTTCATACAGGTATGACAGTGA
*
5940456 ACAAAAAACAGAGGCAATGACAGACACCCTTGCTCCGGGAAAGTTAGGATTATCTGAAACTGAAA
258 ACAAAAAACAGAGACAATGACAGACACCCTTGCTCCGGGAAAGTTAGGATTATCTGAAACTGAAA
* *
5940521 CTTTGATACCCTTGAGCTTTACTTTTGAGTGTTACGGGTTCTATATCTTTTGTTCACAAAGTTGG
323 CTTTGATACCTTTGAGCTTTGCTTTTGAGTGTTACGGGTTCTATATCTTTTGTTCACAAAGTTGG
* * * * *
5940586 AAAAATATGATAATCATTACCTTTTTAGTCTTTCGAATCTCAAAATACTCCCACTACCTACTCTT
388 AAAAATATGATCATCCTTACCTTTTTAGTATTTCGAAACTCAAAACACTCCCACTACCTACTCTT
* * *
5940651 TCTTTGGCTTTTATATTTTTTTTCTTTTTTCTACACCTTAAAGCCTAA-ATGTCTTACAAAAATG
453 TCTTTGGCTTTTATA-TTTTCTTCCTTTTTCTGCACCTTAAAGCCTAAGA-GTCTTACAAAAATG
*
5940715 ACTCAAAACTG--TAATAATAATGACAC-TC--CACCCAAATTTTTTTTTCATGTACTGGTGCCG
516 ACTCAAAACTGTATAATAATAATGACACGCCAGCACCCAAATTTTTTTTTCATGTACTGGTGCCG
*
5940775 ACCAT
581 CCCAT
* *
5940780 TGACAGGCCAGCACCTAAATTTTTTTTTCGTGTACTGGTTTCTGCTATTGACAAACCAACACTCA
1 TGACAGGCCAGCACCTAAATTTTTTTTTCGTGTACTGGTTTCTGCTATTGACAAGCCAGCACTCA
* * *
5940845 AAAAAATTTTATTTTCGTTTACTGGTGCCGGCCATTGACAGGCCATCACCAAAAATTTTTTTTCC
66 AAAAAA----AATTTCGTTTACTGGTGCCGGCCATTGAAAGGCAATCACCAAAAATTTTTTTTCC
* * * *
5940910 ATGTACTGGTGCTAGCTTTAGAATATGTATTGTTAAATAAAATTTTGGGATTGTTGATGAACTTT
127 GTGTACTGGTGCTAGCTTTAGAATATGTAATGTGAAATAAAATTTTGGGACTGTTGATGAACTTT
* * *
5940975 ACCTCAAATTAGTAATTTCAATTAAATCAGATTTTTTATTTTTAGTTCATACAAGTATGACAGTG
192 ACCTTAAATTAGTAATTTCAATTAAATCAGATTTTCTATTTTTAGTTCATACAGGTATGACAGTG
*
5941040 AACAAAAAACAGAGACAATGACAGACACCTTTGCTCCGGGAAAGTTAGGATTATTCTGAAACTGA
257 AACAAAAAACAGAGACAATGACAGACACCCTTGCTCCGGGAAAGTTAGGATTA-TCTGAAACTGA
* * * *
5941105 AACTTTAATACCTTTGAGTTTTGCTTTTGAGTGTTACGGGTTCTATATATTTTGTTTACAAAGT
321 AACTTTGATACCTTTGAGCTTTGCTTTTGAGTGTTACGGGTTCTATATCTTTTGTTCACAAAGT
5941169 AAAGAAACTA
Statistics
Matches: 1410, Mismatches: 128, Indels: 53
0.89 0.08 0.03
Matches are distributed among these distances:
580 41 0.03
581 7 0.00
582 3 0.00
583 49 0.03
584 35 0.02
585 522 0.37
586 130 0.09
587 25 0.02
588 334 0.24
589 75 0.05
590 39 0.03
591 27 0.02
592 97 0.07
593 26 0.02
ACGTcount: A:0.31, C:0.18, G:0.15, T:0.36
Consensus pattern (585 bp):
TGACAGGCCAGCACCTAAATTTTTTTTTCGTGTACTGGTTTCTGCTATTGACAAGCCAGCACTCA
AAAAAAAATTTCGTTTACTGGTGCCGGCCATTGAAAGGCAATCACCAAAAATTTTTTTTCCGTGT
ACTGGTGCTAGCTTTAGAATATGTAATGTGAAATAAAATTTTGGGACTGTTGATGAACTTTACCT
TAAATTAGTAATTTCAATTAAATCAGATTTTCTATTTTTAGTTCATACAGGTATGACAGTGAACA
AAAAACAGAGACAATGACAGACACCCTTGCTCCGGGAAAGTTAGGATTATCTGAAACTGAAACTT
TGATACCTTTGAGCTTTGCTTTTGAGTGTTACGGGTTCTATATCTTTTGTTCACAAAGTTGGAAA
AATATGATCATCCTTACCTTTTTAGTATTTCGAAACTCAAAACACTCCCACTACCTACTCTTTCT
TTGGCTTTTATATTTTCTTCCTTTTTCTGCACCTTAAAGCCTAAGAGTCTTACAAAAATGACTCA
AAACTGTATAATAATAATGACACGCCAGCACCCAAATTTTTTTTTCATGTACTGGTGCCGCCCAT
Found at i:5940806 original size:48 final size:48
Alignment explanation
Indices: 5940748--5940921 Score: 170
Period size: 48 Copynumber: 3.5 Consensus size: 48
5940738 CACTCCACCC
* *
5940748 AAATTTTTTTTTCATGTACTGGTGCCGACCATTGACAGGCCAGCACC-T
1 AAATTTTTTTTTCATGTACTGGTGCCG-CCATTGACAGGCCAACACCAA
* * * * **
5940796 AAATTTTTTTTTCGTGTACTGGTTTCTGCTATTGACAAACCAACACTCAAAA
1 AAATTTTTTTTTCATGTACTGG-TGCCGCCATTGACAGGCCAACAC-C--AA
* * * *
5940848 AAATTTTATTTTCGTTTACTGGTGCCGGCCATTGACAGGCCATCACCAA
1 AAATTTTTTTTTCATGTACTGGTGCC-GCCATTGACAGGCCAACACCAA
*
5940897 AAATTTTTTTTCCATGTACTGGTGC
1 AAATTTTTTTTTCATGTACTGGTGC
5940922 TAGCTTTAGA
Statistics
Matches: 100, Mismatches: 20, Indels: 11
0.76 0.15 0.08
Matches are distributed among these distances:
48 35 0.35
49 27 0.27
51 3 0.03
52 35 0.35
ACGTcount: A:0.25, C:0.22, G:0.16, T:0.37
Consensus pattern (48 bp):
AAATTTTTTTTTCATGTACTGGTGCCGCCATTGACAGGCCAACACCAA
Found at i:5942763 original size:30 final size:30
Alignment explanation
Indices: 5942698--5942829 Score: 144
Period size: 30 Copynumber: 4.5 Consensus size: 30
5942688 AATGTAAAAA
** *
5942698 TAAAAATTACATTTTAA-CCCTGTACTTTT
1 TAAAAATTACATTTTAACCCCTAAACTTTC
* * *
5942727 TAAAATTTACATTTTGA-CCTTAAACTTTTC
1 TAAAAATTACATTTTAACCCCTAAAC-TTTC
*
5942757 T-AAAATTACATTTCAACCCCTAAACTTTC
1 TAAAAATTACATTTTAACCCCTAAACTTTC
* * *
5942786 TAAAAATTGCACTTTGACCCCTAAACTTTC
1 TAAAAATTACATTTTAACCCCTAAACTTTC
5942816 TAAAAATTACATTT
1 TAAAAATTACATTT
5942830 GGCCCATATT
Statistics
Matches: 84, Mismatches: 16, Indels: 5
0.80 0.15 0.05
Matches are distributed among these distances:
29 37 0.44
30 47 0.56
ACGTcount: A:0.36, C:0.20, G:0.03, T:0.40
Consensus pattern (30 bp):
TAAAAATTACATTTTAACCCCTAAACTTTC
Found at i:5942784 original size:59 final size:59
Alignment explanation
Indices: 5942698--5942829 Score: 160
Period size: 59 Copynumber: 2.2 Consensus size: 59
5942688 AATGTAAAAA
* ** * * * *
5942698 TAAAAATTACATTTTAACCCTGTACTTTTTAAAATTTACATTTTGA-CCTTAAACTTTTC
1 TAAAAATTACATTTCAACCCTAAACTTTCTAAAAATTACACTTTGACCCCTAAAC-TTTC
*
5942757 T-AAAATTACATTTCAACCCCTAAACTTTCTAAAAATTGCACTTTGACCCCTAAACTTTC
1 TAAAAATTACATTTCAA-CCCTAAACTTTCTAAAAATTACACTTTGACCCCTAAACTTTC
5942816 TAAAAATTACATTT
1 TAAAAATTACATTT
5942830 GGCCCATATT
Statistics
Matches: 62, Mismatches: 8, Indels: 5
0.83 0.11 0.07
Matches are distributed among these distances:
58 14 0.23
59 29 0.47
60 19 0.31
ACGTcount: A:0.36, C:0.20, G:0.03, T:0.40
Consensus pattern (59 bp):
TAAAAATTACATTTCAACCCTAAACTTTCTAAAAATTACACTTTGACCCCTAAACTTTC
Found at i:5943575 original size:11 final size:11
Alignment explanation
Indices: 5943561--5943590 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
5943551 GAAGAAAAGC
*
5943561 AGAAAAGAGAA
1 AGAAAAAAGAA
5943572 AGAAAAAAGAA
1 AGAAAAAAGAA
5943583 AGAAAAAA
1 AGAAAAAA
5943591 ATAAAAATAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (11 bp):
AGAAAAAAGAA
Found at i:5946965 original size:17 final size:17
Alignment explanation
Indices: 5946943--5947004 Score: 52
Period size: 17 Copynumber: 3.5 Consensus size: 17
5946933 CTTTTTTAAA
5946943 AAAAATAATCGTGTTTC
1 AAAAATAATCGTGTTTC
** *
5946960 AAAAATTTTCATGTTCTC
1 AAAAATAATCGTGTT-TC
* **
5946978 AAAATTTCTCGTGTTTC
1 AAAAATAATCGTGTTTC
5946995 AAAAAGTAAT
1 AAAAA-TAAT
5947005 AATAAAATTT
Statistics
Matches: 34, Mismatches: 9, Indels: 3
0.74 0.20 0.07
Matches are distributed among these distances:
17 18 0.53
18 16 0.47
ACGTcount: A:0.39, C:0.13, G:0.10, T:0.39
Consensus pattern (17 bp):
AAAAATAATCGTGTTTC
Found at i:5946979 original size:18 final size:18
Alignment explanation
Indices: 5946954--5946999 Score: 60
Period size: 17 Copynumber: 2.6 Consensus size: 18
5946944 AAAATAATCG
5946954 TGTTTCAAAAATTT-TCA
1 TGTTTCAAAAATTTCTCA
*
5946971 TGTTCTC-AAAATTTCTCG
1 TGTT-TCAAAAATTTCTCA
5946989 TGTTTCAAAAA
1 TGTTTCAAAAA
5947000 GTAATAATAA
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
17 13 0.52
18 12 0.48
ACGTcount: A:0.33, C:0.15, G:0.09, T:0.43
Consensus pattern (18 bp):
TGTTTCAAAAATTTCTCA
Found at i:5947079 original size:18 final size:18
Alignment explanation
Indices: 5947058--5947263 Score: 75
Period size: 17 Copynumber: 11.3 Consensus size: 18
5947048 TTCGTGCTTC
5947058 AAAAATTTCCGTGTTTTT
1 AAAAATTTCCGTGTTTTT
* *
5947076 AAAAAAAATTTCTGTG-TTTC
1 ---AAAAATTTCCGTGTTTTT
* * *
5947096 AAAAA-ATCCTTTGTTTTC
1 AAAAATTTCC-GTGTTTTT
*
5947114 AAAAATTTTCGTG-TTTT
1 AAAAATTTCCGTGTTTTT
** *
5947131 AGGAATTTTCGTGTTTTTT
1 AAAAATTTCCGTG-TTTTT
* *
5947150 AAAAAAAACTT-CGTG-TTTC
1 ---AAAAATTTCCGTGTTTTT
* *
5947169 AAAAATTTCTGTGTTTTCA
1 AAAAATTTCCGTGTTTT-T
*
5947188 AAAAATTTCCGTG-TTTC
1 AAAAATTTCCGTGTTTTT
** *
5947205 AAAAAAATCCTGTGTTTTA
1 AAAAATTTCC-GTGTTTTT
** *
5947224 AAAAATTTTAGTG-TCTT
1 AAAAATTTCCGTGTTTTT
* *
5947241 AGAAATTTTCGTGTTTTT
1 AAAAATTTCCGTGTTTTT
5947259 AAAAA
1 AAAAA
5947264 AAAATTCCTC
Statistics
Matches: 138, Mismatches: 33, Indels: 31
0.68 0.16 0.15
Matches are distributed among these distances:
16 9 0.07
17 45 0.33
18 30 0.22
19 30 0.22
20 3 0.02
21 16 0.12
22 5 0.04
ACGTcount: A:0.33, C:0.10, G:0.12, T:0.45
Consensus pattern (18 bp):
AAAAATTTCCGTGTTTTT
Found at i:5947081 original size:36 final size:36
Alignment explanation
Indices: 5947035--5947265 Score: 184
Period size: 36 Copynumber: 6.3 Consensus size: 36
5947025 ATATTCAGTT
* *
5947035 TTTTTAAAAAAACTTCGTGCTTCAAAAATTTCCGTG
1 TTTTTAAAAAAATTTCGTGTTTCAAAAATTTCCGTG
* *
5947071 TTTTTAAAAAAAATTTCTGTGTTTCAAAAA-ATCC-TT
1 TTTTT-AAAAAAATTTC-GTGTTTCAAAAATTTCCGTG
* * * ** *
5947107 TGTTTTCAAAAATTTTCGTGTTTTAGGAATTTTCGTG
1 T-TTTTAAAAAAATTTCGTGTTTCAAAAATTTCCGTG
* *
5947144 TTTTTTAAAAAAAACTTCGTGTTTCAAAAATTTCTGTG
1 -TTTTT-AAAAAAATTTCGTGTTTCAAAAATTTCCGTG
* **
5947182 -TTTTCAAAAAATTTCCGTGTTTCAAAAAAATCC-TG
1 TTTTTAAAAAAATTT-CGTGTTTCAAAAATTTCCGTG
* * * *
5947217 TGTTTTAAAAAATTTTAGTGTCTT-AGAAATTTTCGTG
1 T-TTTTAAAAAAATTTCGTGT-TTCAAAAATTTCCGTG
5947254 TTTTTAAAAAAA
1 TTTTTAAAAAAA
5947266 AATTCCTCAT
Statistics
Matches: 150, Mismatches: 33, Indels: 24
0.72 0.16 0.12
Matches are distributed among these distances:
35 19 0.13
36 57 0.38
37 39 0.26
38 35 0.23
ACGTcount: A:0.34, C:0.11, G:0.11, T:0.44
Consensus pattern (36 bp):
TTTTTAAAAAAATTTCGTGTTTCAAAAATTTCCGTG
Found at i:5947100 original size:21 final size:21
Alignment explanation
Indices: 5947058--5947101 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
5947048 TTCGTGCTTC
**
5947058 AAAAATTTCCGTGTTTTTAAA
1 AAAAATTTCCGTGTTTCAAAA
*
5947079 AAAAATTTCTGTGTTTCAAAA
1 AAAAATTTCCGTGTTTCAAAA
5947100 AA
1 AA
5947102 TCCTTTGTTT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.43, C:0.09, G:0.09, T:0.39
Consensus pattern (21 bp):
AAAAATTTCCGTGTTTCAAAA
Found at i:5947223 original size:73 final size:73
Alignment explanation
Indices: 5947036--5947228 Score: 210
Period size: 73 Copynumber: 2.6 Consensus size: 73
5947026 TATTCAGTTT
* * * *
5947036 TTTTAAAAAAACTTCGTGCTTCAAAAATTTCC-GTGTTTTTAAAAAAAATTTCTGTGTTTCAAAA
1 TTTTCAAAAAATTTCGTGTTTCAAAAATTTCCTGTG-TTTTAAAAAAAACTTCTGTGTTTCAAAA
*
5947100 AATCCTTTG
65 AATCCTGTG
* * * * * *
5947109 TTTTCAAAAATTTTCGTGTTTTAGGAATTTTCGTGTTTTTTAAAAAAAACTTC-GTGTTTCAAAA
1 TTTTCAAAAAATTTCGTGTTTCA-AAAATTTCCTGTGTTTTAAAAAAAACTTCTGTGTTTCAAAA
* *
5947173 ATTTCTGTG
65 AATCCTGTG
**
5947182 TTTTCAAAAAATTTCCGTGTTTCAAAAAAATCCTGTGTTTTAAAAAA
1 TTTTCAAAAAATTT-CGTGTTTCAAAAATTTCCTGTGTTTTAAAAAA
5947229 TTTTAGTGTC
Statistics
Matches: 96, Mismatches: 21, Indels: 6
0.78 0.17 0.05
Matches are distributed among these distances:
73 65 0.68
74 29 0.30
75 2 0.02
ACGTcount: A:0.34, C:0.12, G:0.11, T:0.43
Consensus pattern (73 bp):
TTTTCAAAAAATTTCGTGTTTCAAAAATTTCCTGTGTTTTAAAAAAAACTTCTGTGTTTCAAAAA
ATCCTGTG
Found at i:5947267 original size:110 final size:111
Alignment explanation
Indices: 5947040--5947267 Score: 343
Period size: 110 Copynumber: 2.1 Consensus size: 111
5947030 CAGTTTTTTT
*
5947040 AAAAAAACTTCGTGCTTCAAAAATTTCCGTGTTTTTAAAAAAAATTTCTGTGTTTCAAAAAATCC
1 AAAAAAACTTCGTGCTTCAAAAATTTCCGTGTTTTTAAAAAAAATTTCCGTGTTTCAAAAAATCC
* * * * * *
5947105 TTTGTTTTCAAAAATTTTCGTGTTTTAGGAATTTTCGTGTTTTTTA
66 TGTGTTTTAAAAAATTTTAGTGTCTTAGAAATTTTCGTGTTTTTAA
* * *
5947151 AAAAAAACTTCGTGTTTCAAAAATTTCTGTG-TTTT-CAAAAAATTTCCGTGTTTCAAAAAAATC
1 AAAAAAACTTCGTGCTTCAAAAATTTCCGTGTTTTTAAAAAAAATTTCCGTGTTTC-AAAAAATC
5947214 CTGTGTTTTAAAAAATTTTAGTGTCTTAGAAATTTTCGTGTTTTTAA
65 CTGTGTTTTAAAAAATTTTAGTGTCTTAGAAATTTTCGTGTTTTTAA
5947261 AAAAAAA
1 AAAAAAA
5947268 TTCCTCATAT
Statistics
Matches: 106, Mismatches: 10, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
109 17 0.16
110 60 0.57
111 29 0.27
ACGTcount: A:0.35, C:0.11, G:0.11, T:0.43
Consensus pattern (111 bp):
AAAAAAACTTCGTGCTTCAAAAATTTCCGTGTTTTTAAAAAAAATTTCCGTGTTTCAAAAAATCC
TGTGTTTTAAAAAATTTTAGTGTCTTAGAAATTTTCGTGTTTTTAA
Found at i:5947354 original size:17 final size:16
Alignment explanation
Indices: 5947334--5947411 Score: 54
Period size: 17 Copynumber: 4.8 Consensus size: 16
5947324 AAAAAAATCC
5947334 TCGTGTTTCACAAATTT
1 TCGTGTTTCA-AAATTT
* * *
5947351 TCGTATTATAAAAAAATT
1 TCGTGTT-T-CAAAATTT
5947369 TCGTGTTTCAAGAATTT
1 TCGTGTTTCAA-AATTT
*
5947386 TCGTG--T-AAATTTT
1 TCGTGTTTCAAAATTT
*
5947399 TCGTGTTTTAAAA
1 TCGTGTTTCAAAA
5947412 AAATAAAAAT
Statistics
Matches: 47, Mismatches: 8, Indels: 13
0.69 0.12 0.19
Matches are distributed among these distances:
13 9 0.19
14 2 0.04
15 2 0.04
16 5 0.11
17 16 0.34
18 12 0.26
19 1 0.02
ACGTcount: A:0.31, C:0.10, G:0.13, T:0.46
Consensus pattern (16 bp):
TCGTGTTTCAAAATTT
Found at i:5947373 original size:35 final size:35
Alignment explanation
Indices: 5947303--5947389 Score: 113
Period size: 35 Copynumber: 2.4 Consensus size: 35
5947293 CTTTTAGCGT
* *
5947303 TTTCAAAATTTTACGTGTTTTAAAAAAATCCTCGTG
1 TTTCAAAATTTT-CGTATTATAAAAAAATCCTCGTG
*
5947339 TTTCACAAATTTTCGTATTATAAAAAAAT-TTCGTG
1 TTTCA-AAATTTTCGTATTATAAAAAAATCCTCGTG
5947374 TTTCAAGAATTTTCGT
1 TTTCAA-AATTTTCGT
5947390 GTAAATTTTT
Statistics
Matches: 46, Mismatches: 3, Indels: 5
0.85 0.06 0.09
Matches are distributed among these distances:
34 1 0.02
35 19 0.41
36 19 0.41
37 7 0.15
ACGTcount: A:0.33, C:0.13, G:0.10, T:0.44
Consensus pattern (35 bp):
TTTCAAAATTTTCGTATTATAAAAAAATCCTCGTG
Found at i:5947434 original size:90 final size:93
Alignment explanation
Indices: 5947326--5947509 Score: 259
Period size: 90 Copynumber: 2.0 Consensus size: 93
5947316 CGTGTTTTAA
* * *
5947326 AAAAATCCTCGTGTTTCACAAATTTTCGTATTAT-AAAAAAATTTCGTGTTTCAAGAATTT-TCG
1 AAAAATCCTCGTGTTTCACAAATTTTCATATTATCAAAAAAAATTCATGTTTCAAGAATTTCT-G
* *
5947389 TG-T-AAATTTTTCGTGTTTTAAAAAAAT
65 TGCTCAAAATTCTCGTGTTTTAAAAAAAT
* *
5947416 AAAAATTCTCGTGTTTCACAAATTTTCATATTTTCAAAAAAAATTCATGTTTCAAGAATTTCTGT
1 AAAAATCCTCGTGTTTCACAAATTTTCATATTATCAAAAAAAATTCATGTTTCAAGAATTTCTGT
5947481 GCTTCAAAATTCTCGTGTTTTAAAAAAAT
66 GC-TCAAAATTCTCGTGTTTTAAAAAAAT
5947510 TCTCATGATT
Statistics
Matches: 82, Mismatches: 7, Indels: 6
0.86 0.07 0.06
Matches are distributed among these distances:
90 31 0.38
91 27 0.33
92 1 0.01
93 1 0.01
94 22 0.27
ACGTcount: A:0.36, C:0.12, G:0.10, T:0.41
Consensus pattern (93 bp):
AAAAATCCTCGTGTTTCACAAATTTTCATATTATCAAAAAAAATTCATGTTTCAAGAATTTCTGT
GCTCAAAATTCTCGTGTTTTAAAAAAAT
Done.