Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A11
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: 113101708
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2797742 characters in sequence are not A, C, G, or T
File 111 of 352
Found at i:35613940 original size:146 final size:140
Alignment explanation
Indices: 35613636--35613958 Score: 350
Period size: 146 Copynumber: 2.3 Consensus size: 140
35613626 CACATTATGA
* * *
35613636 GAGCCAGTGTAAGACCATGTATGGGACATGGCATC--AACATTGAGACGAGAGCTAGTGTAAGAC
1 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCACAATGAGACGAGAGCTAGTGTAAGAC
* * * *
35613699 ATGTCTGGGACATGCATCGGCCTCGAGATGTAAGCCAGTGTAAGATATGTCTGGGACATGCATCG
66 ATGTCTGGGACATGCATCAGCCTCGAGATCTAAGCCAGTGTAAGACATGTCTGGAACATGCATCG
*
35613764 GCTGCGAGAT
131 ACTGCGAGAT
* * * *
35613774 GTGTCAGTGTAAGACCATGTCTGGGACATGGCGTCGGCACGAAT-ATG-TGAGAGCTAGTGTAAG
1 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCAC-AATGA-GACGAGAGCTAGTGTAAG
* * * ** **
35613837 ACCATGTGTTGGACATGGCATCAGCCTTGATTTCTATAGTTAGTGTAAGACCATGTCTGGAACAT
64 A-CATGTCTGGGACAT-GCATCAGCCTCGAGATCTA-AGCCAGTGTAAGA-CATGTCTGGAACAT
*
35613902 GGCATCGACT-TGATGGAT
125 -GCATCGACTGCGA--GAT
35613920 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCA
1 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCA
35613959 TTATACCCTA
Statistics
Matches: 151, Mismatches: 23, Indels: 14
0.80 0.12 0.07
Matches are distributed among these distances:
138 31 0.21
140 19 0.13
141 15 0.10
142 14 0.09
143 11 0.07
144 14 0.09
145 8 0.05
146 39 0.26
ACGTcount: A:0.27, C:0.19, G:0.31, T:0.24
Consensus pattern (140 bp):
GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCACAATGAGACGAGAGCTAGTGTAAGAC
ATGTCTGGGACATGCATCAGCCTCGAGATCTAAGCCAGTGTAAGACATGTCTGGAACATGCATCG
ACTGCGAGAT
Found at i:35616402 original size:29 final size:27
Alignment explanation
Indices: 35616340--35616405 Score: 71
Period size: 29 Copynumber: 2.3 Consensus size: 27
35616330 TGAAATTTAA
*
35616340 AAAATATATACTTGATTTCTTATTTGTT
1 AAAATATATAATTGATTTCTTATTTG-T
35616368 ATAAATATATAATTAGATTTCTTACATTTG-
1 A-AAATATATAATT-GATTTCTT--ATTTGT
35616398 AAAATATA
1 AAAATATA
35616406 ATTTTGTAAG
Statistics
Matches: 33, Mismatches: 1, Indels: 7
0.80 0.02 0.17
Matches are distributed among these distances:
28 1 0.03
29 18 0.55
30 9 0.27
32 5 0.15
ACGTcount: A:0.41, C:0.06, G:0.06, T:0.47
Consensus pattern (27 bp):
AAAATATATAATTGATTTCTTATTTGT
Found at i:35625265 original size:21 final size:21
Alignment explanation
Indices: 35625241--35625294 Score: 65
Period size: 21 Copynumber: 2.5 Consensus size: 21
35625231 TCTTTTTCAG
*
35625241 CAACTTCTTCTTTT-TCATCAA
1 CAACTTCTTCTTTTGT-AGCAA
*
35625262 CAACTTCCTCTTTTGTAGCAA
1 CAACTTCTTCTTTTGTAGCAA
35625283 CAACTTCCTTCT
1 CAACTT-CTTCT
35625295 CAACAATAGT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
21 23 0.82
22 5 0.18
ACGTcount: A:0.22, C:0.31, G:0.04, T:0.43
Consensus pattern (21 bp):
CAACTTCTTCTTTTGTAGCAA
Found at i:35625268 original size:18 final size:18
Alignment explanation
Indices: 35625231--35625289 Score: 55
Period size: 18 Copynumber: 3.1 Consensus size: 18
35625221 TTTTTCTTTC
**
35625231 TCTTTTTCAGCAACTTCT
1 TCTTTTTCAGCAACAACT
*
35625249 TCTTTTTCATCAACAACT
1 TCTTTTTCAGCAACAACT
*
35625267 TCCTCTTTTGTAGCAACAACT
1 T-CT-TTTT-CAGCAACAACT
35625288 TC
1 TC
35625290 CTTCTCAACA
Statistics
Matches: 33, Mismatches: 5, Indels: 4
0.79 0.12 0.10
Matches are distributed among these distances:
18 16 0.48
19 2 0.06
20 5 0.15
21 10 0.30
ACGTcount: A:0.22, C:0.29, G:0.05, T:0.44
Consensus pattern (18 bp):
TCTTTTTCAGCAACAACT
Found at i:35632251 original size:40 final size:40
Alignment explanation
Indices: 35632196--35632458 Score: 370
Period size: 40 Copynumber: 6.6 Consensus size: 40
35632186 GATGATAACG
*
35632196 GGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAATTTC
1 GGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAATTCC
35632236 GGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAATTCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAATTCC
*
35632276 AGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAATTCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAATTCC
* * *
35632316 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATTTCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAATTCC
* *
35632356 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT-ATATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAAT-TCC
* * *
35632396 GGGCTAAGTCTCGAAGGCATTTGTGCGAACT-ACT-ATATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGC-TAGTGACTAAT-TCC
* *
35632436 GGTCTAAGTCCCAAAGGCATTTG
1 GGGCTAAGTCCCGAAGGCATTTG
35632459 AGCGAGTAGC
Statistics
Matches: 208, Mismatches: 13, Indels: 4
0.92 0.06 0.02
Matches are distributed among these distances:
39 1 0.00
40 205 0.99
41 2 0.01
ACGTcount: A:0.23, C:0.22, G:0.27, T:0.28
Consensus pattern (40 bp):
GGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAATTCC
Found at i:35632263 original size:22 final size:22
Alignment explanation
Indices: 35632198--35632263 Score: 52
Period size: 22 Copynumber: 3.2 Consensus size: 22
35632188 TGATAACGGG
35632198 GCTAAGTCCCGAAGGCATTTGT
1 GCTAAGTCCCGAAGGCATTTGT
*** *
35632220 GCT-AGT---G-ACTAATTTCGG
1 GCTAAGTCCCGAAGGCATTT-GT
35632238 GCTAAGTCCCGAAGGCATTTGT
1 GCTAAGTCCCGAAGGCATTTGT
35632260 GCTA
1 GCTA
35632264 GTGACTAATT
Statistics
Matches: 30, Mismatches: 8, Indels: 12
0.60 0.16 0.24
Matches are distributed among these distances:
17 5 0.17
18 5 0.17
19 3 0.10
21 3 0.10
22 9 0.30
23 5 0.17
ACGTcount: A:0.23, C:0.21, G:0.27, T:0.29
Consensus pattern (22 bp):
GCTAAGTCCCGAAGGCATTTGT
Found at i:35645796 original size:43 final size:43
Alignment explanation
Indices: 35645749--35645851 Score: 145
Period size: 43 Copynumber: 2.4 Consensus size: 43
35645739 TCCCAAGCAA
* *
35645749 GGTCTTACATGAAATCA-AATAACGATGCCAACGTCCTAGACAT
1 GGTCTTACATGTAATCATAAT-ACAATGCCAACGTCCTAGACAT
* *
35645792 GGTCTTACACGTAATCATAATACAATGCCAATGTCCTAGACAT
1 GGTCTTACATGTAATCATAATACAATGCCAACGTCCTAGACAT
*
35645835 GGTCTTACCTGTAATCA
1 GGTCTTACATGTAATCA
35645852 CATCTCGATA
Statistics
Matches: 53, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
43 50 0.94
44 3 0.06
ACGTcount: A:0.34, C:0.23, G:0.16, T:0.27
Consensus pattern (43 bp):
GGTCTTACATGTAATCATAATACAATGCCAACGTCCTAGACAT
Found at i:35652654 original size:28 final size:28
Alignment explanation
Indices: 35652622--35652681 Score: 84
Period size: 28 Copynumber: 2.1 Consensus size: 28
35652612 TTTGGTTCGT
*
35652622 ATCTTCCTAGATAGCAGGTCAAGGTCCG
1 ATCTTCCTAGATAGCAAGTCAAGGTCCG
* * *
35652650 ATCTTCTTAGATAGCAAGTGAAGGTCCT
1 ATCTTCCTAGATAGCAAGTCAAGGTCCG
35652678 ATCT
1 ATCT
35652682 ACATGATCAG
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.27, C:0.22, G:0.22, T:0.30
Consensus pattern (28 bp):
ATCTTCCTAGATAGCAAGTCAAGGTCCG
Found at i:35653716 original size:6 final size:6
Alignment explanation
Indices: 35653705--35653734 Score: 60
Period size: 6 Copynumber: 5.0 Consensus size: 6
35653695 GAATAACCAT
35653705 ATATAC ATATAC ATATAC ATATAC ATATAC
1 ATATAC ATATAC ATATAC ATATAC ATATAC
35653735 CAACATATGC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.50, C:0.17, G:0.00, T:0.33
Consensus pattern (6 bp):
ATATAC
Found at i:35654954 original size:40 final size:40
Alignment explanation
Indices: 35654905--35654985 Score: 153
Period size: 40 Copynumber: 2.0 Consensus size: 40
35654895 AATAAATCCC
*
35654905 TATTTGACATTTTCAACCAAAATTACTTTACAAATATTGT
1 TATTTGACATTTTCAACCAAAATCACTTTACAAATATTGT
35654945 TATTTGACATTTTCAACCAAAATCACTTTACAAATATTGT
1 TATTTGACATTTTCAACCAAAATCACTTTACAAATATTGT
35654985 T
1 T
35654986 TATCTAACAA
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
40 40 1.00
ACGTcount: A:0.37, C:0.16, G:0.05, T:0.42
Consensus pattern (40 bp):
TATTTGACATTTTCAACCAAAATCACTTTACAAATATTGT
Found at i:35658714 original size:29 final size:29
Alignment explanation
Indices: 35658682--35658763 Score: 89
Period size: 29 Copynumber: 2.8 Consensus size: 29
35658672 TTTTAGTTTC
*
35658682 GCCACTGGTTTT-TCATATTTTACAAATT-T
1 GCCACTGGTTTTCT-AGATTTTAC-AATTCT
35658711 GCCACTGGTTTTCTAGATTTTACAATTCT
1 GCCACTGGTTTTCTAGATTTTACAATTCT
* *
35658740 GCCACT-ATTTTCCAGAATTTTACA
1 GCCACTGGTTTTCTAG-ATTTTACA
35658764 GTTTTACCTC
Statistics
Matches: 47, Mismatches: 3, Indels: 6
0.84 0.05 0.11
Matches are distributed among these distances:
28 11 0.23
29 35 0.74
30 1 0.02
ACGTcount: A:0.24, C:0.21, G:0.11, T:0.44
Consensus pattern (29 bp):
GCCACTGGTTTTCTAGATTTTACAATTCT
Found at i:35658963 original size:29 final size:30
Alignment explanation
Indices: 35658916--35658996 Score: 96
Period size: 29 Copynumber: 2.8 Consensus size: 30
35658906 CCATCAATGA
* *
35658916 CCACTGGTTTTTCATATTTTACAAATT-TG
1 CCACTGGTTTTCCAGATTTTACAAATTCTG
35658945 CCACTGGTTTTCCAGATTTTAC-AATTCTG
1 CCACTGGTTTTCCAGATTTTACAAATTCTG
* *
35658974 CCACT-ATTTTCTAGAATTTTACA
1 CCACTGGTTTTCCAG-ATTTTACA
35658997 GTTTTACCTC
Statistics
Matches: 45, Mismatches: 4, Indels: 5
0.83 0.07 0.09
Matches are distributed among these distances:
28 11 0.24
29 34 0.76
ACGTcount: A:0.25, C:0.21, G:0.10, T:0.44
Consensus pattern (30 bp):
CCACTGGTTTTCCAGATTTTACAAATTCTG
Found at i:35659029 original size:28 final size:28
Alignment explanation
Indices: 35658953--35659032 Score: 79
Period size: 28 Copynumber: 2.8 Consensus size: 28
35658943 TGCCACTGGT
* * * * *
35658953 TTTCCAGATTTTACAATTCTGCCACTAT
1 TTTCAAGATTTTACAATTTTACCACAAC
* * *
35658981 TTTCTAGAATTTTACAGTTTTACCTCAAC
1 TTTCAAG-ATTTTACAATTTTACCACAAC
35659010 TTTCAAGATTTTACAATTTTACC
1 TTTCAAGATTTTACAATTTTACC
35659033 CAAACCTTTC
Statistics
Matches: 42, Mismatches: 9, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
28 21 0.50
29 21 0.50
ACGTcount: A:0.28, C:0.21, G:0.06, T:0.45
Consensus pattern (28 bp):
TTTCAAGATTTTACAATTTTACCACAAC
Found at i:35663707 original size:46 final size:48
Alignment explanation
Indices: 35663603--35663708 Score: 128
Period size: 48 Copynumber: 2.2 Consensus size: 48
35663593 TGTCTTCGAC
* *
35663603 ATGGACTTACATGAATTATTCCTGTCTCCAATGCCATATATATATAAT
1 ATGGACTTACATGAATCATTCCTGTCTCCAAAGCCATATATATATAAT
** * *
35663651 ATGGGA-TTACATGGCTCATTCCTGTCTCCAAAGCCATATA-A-CTGAT
1 AT-GGACTTACATGAATCATTCCTGTCTCCAAAGCCATATATATATAAT
35663697 ATGGACTTACAT
1 ATGGACTTACAT
35663709 ATCCTGTCCT
Statistics
Matches: 50, Mismatches: 6, Indels: 6
0.81 0.10 0.10
Matches are distributed among these distances:
45 3 0.06
46 11 0.22
47 1 0.02
48 32 0.64
49 3 0.06
ACGTcount: A:0.31, C:0.21, G:0.14, T:0.34
Consensus pattern (48 bp):
ATGGACTTACATGAATCATTCCTGTCTCCAAAGCCATATATATATAAT
Found at i:35665739 original size:12 final size:11
Alignment explanation
Indices: 35665722--35665815 Score: 52
Period size: 12 Copynumber: 8.2 Consensus size: 11
35665712 TAAAATTAAA
35665722 AATAATATAAT
1 AATAATATAAT
*
35665733 GAATAATAAAACAT
1 -AATAAT-ATA-AT
35665747 AAATAATATAAT
1 -AATAATATAAT
35665759 AGATAATAT-AT
1 A-ATAATATAAT
*
35665770 GATATACATATCAT
1 -A-ATA-ATATAAT
*
35665784 -ATAATA-AGT
1 AATAATATAAT
35665793 AAT-ATATAAT
1 AATAATATAAT
*
35665803 AAAAATATAAT
1 AATAATATAAT
35665814 AA
1 AA
35665816 ATGTTAATAA
Statistics
Matches: 65, Mismatches: 8, Indels: 19
0.71 0.09 0.21
Matches are distributed among these distances:
9 4 0.06
10 9 0.14
11 15 0.23
12 19 0.29
13 8 0.12
14 10 0.15
ACGTcount: A:0.61, C:0.03, G:0.04, T:0.32
Consensus pattern (11 bp):
AATAATATAAT
Found at i:35665837 original size:28 final size:28
Alignment explanation
Indices: 35665723--35665840 Score: 81
Period size: 26 Copynumber: 4.1 Consensus size: 28
35665713 AAAATTAAAA
35665723 ATAATATAATG-AATA-ATAAAACATAA-
1 ATAATA-AATGTAATATATAAAACATAAT
*
35665749 ATAATATAATAGATAATATATGATATACATATCAT
1 ATAATA-AAT-G-TAATATAT-A-AAACATA--AT
35665784 ATAAT-AA-GTAATATATAATAA-A-AAT
1 ATAATAAATGTAATATATAA-AACATAAT
35665809 ATAATAAATGTTAATA-ATAAAACATAAT
1 ATAATAAATG-TAATATATAAAACATAAT
35665837 ATAA
1 ATAA
35665841 ATATATAGGA
Statistics
Matches: 75, Mismatches: 2, Indels: 28
0.71 0.02 0.27
Matches are distributed among these distances:
25 7 0.09
26 14 0.19
27 8 0.11
28 14 0.19
29 6 0.08
30 10 0.13
31 2 0.03
32 6 0.08
33 2 0.03
34 1 0.01
35 5 0.07
ACGTcount: A:0.60, C:0.03, G:0.04, T:0.32
Consensus pattern (28 bp):
ATAATAAATGTAATATATAAAACATAAT
Found at i:35666761 original size:22 final size:23
Alignment explanation
Indices: 35666733--35666786 Score: 65
Period size: 22 Copynumber: 2.4 Consensus size: 23
35666723 TTGTGGTGTG
* *
35666733 TTTCTCTCTATGTCTCTGTAT-T
1 TTTCTCTCTATATCTATGTATAT
*
35666755 TTTCTCTATATATCTATGTATAT
1 TTTCTCTCTATATCTATGTATAT
*
35666778 ATTCTCTCT
1 TTTCTCTCT
35666787 GCTATTGTGT
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
22 18 0.69
23 8 0.31
ACGTcount: A:0.17, C:0.20, G:0.06, T:0.57
Consensus pattern (23 bp):
TTTCTCTCTATATCTATGTATAT
Found at i:35667949 original size:205 final size:205
Alignment explanation
Indices: 35667499--35668045 Score: 765
Period size: 205 Copynumber: 2.7 Consensus size: 205
35667489 AAATCTGCTT
** *
35667499 CTTCGATTTGTTCTCTGACAATATAGAGATGAAAAATCATCTTAGATTTGCTTCAGCATAAACAC
1 CTTCGATTTGTTCTCTGACAATATAGAGATGCCAAATCATCTTAGATTTGCTTCAGCGTAAACAC
* * * * *
35667564 GCGAAAGCTAAATCAGCCAAGTCTTTGATTTGTTCCTTGTAAGCACAAGGATTCCAAATCATCTT
66 GTGAAAGCAAAATCAGCTATGTCTTTGATTTGTTCCTTGTAAGCACAAGGATT-CAAACCATCTT
* ** * * * * * * ** ** *
35667629 AGATCTTGCTTCAGTCTAATCGTCTGAAGGTCATATCTGCTATGTATCTGTTTTCCTTTGAAGTG
130 GGATCTCACTTCAGTATAAACATCTGAAGGTCAGATATGCTATATATCTACTCCCCGTTGAAGTG
35667694 GAAATGCCAGA
195 GAAATGCCAGA
*
35667705 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCAGCGTAAACAC
1 CTTCGATTTGTTCTCTGACAATATAGAGATGCCAAATCATCTTAGATTTGCTTCAGCGTAAACAC
*
35667770 GTGAAAGGC-AAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATATCAAACCATCT
66 GTGAAA-GCAAAATCAGCTATGTCTTTGATTTGTTCCTTGTAAGCACAAGGAT-TCAAACCATCT
*
35667834 TGGATC-CACTTCAGTATAAACATCTGAAGGTGAGATATGCTATATATCTACTCCCCGTTGAAGT
129 TGGATCTCACTTCAGTATAAACATCTGAAGGTCAGATATGCTATATATCTACTCCCCGTTGAAGT
35667898 GGAAATGCCAGA
194 GGAAATGCCAGA
* * * *
35667910 CTTCGATTTGCTCTCTGACAATATAGAGATCCCAAATCATCTTAGATTTGCTTCATCGTAAGCAC
1 CTTCGATTTGTTCTCTGACAATATAGAGATGCCAAATCATCTTAGATTTGCTTCAGCGTAAACAC
* *
35667975 GTGAAAGCAAAATCAGCTATGTCTTTGATTCGTTCCTTGTAAGCACAAGGATGCCAAACCATCTT
66 GTGAAAGCAAAATCAGCTATGTCTTTGATTTGTTCCTTGTAAGCACAAGGAT-TCAAACCATCTT
35668040 GGATCT
130 GGATCT
35668046 TGCTTCAGCC
Statistics
Matches: 304, Mismatches: 33, Indels: 8
0.88 0.10 0.02
Matches are distributed among these distances:
204 2 0.01
205 179 0.59
206 120 0.39
207 3 0.01
ACGTcount: A:0.30, C:0.21, G:0.18, T:0.32
Consensus pattern (205 bp):
CTTCGATTTGTTCTCTGACAATATAGAGATGCCAAATCATCTTAGATTTGCTTCAGCGTAAACAC
GTGAAAGCAAAATCAGCTATGTCTTTGATTTGTTCCTTGTAAGCACAAGGATTCAAACCATCTTG
GATCTCACTTCAGTATAAACATCTGAAGGTCAGATATGCTATATATCTACTCCCCGTTGAAGTGG
AAATGCCAGA
Found at i:35676200 original size:15 final size:15
Alignment explanation
Indices: 35676158--35676207 Score: 61
Period size: 15 Copynumber: 3.5 Consensus size: 15
35676148 ATAACTTTGA
*
35676158 ATGCAAATG-ATGCG
1 ATGCAAATGCATGAG
35676172 ATG-AAATGCTATGAG
1 ATGCAAATGC-ATGAG
35676187 ATGCAAATGCATGA-
1 ATGCAAATGCATGAG
35676201 ATGCAAA
1 ATGCAAA
35676208 AAGAATATCG
Statistics
Matches: 32, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
13 5 0.16
14 10 0.31
15 11 0.34
16 6 0.19
ACGTcount: A:0.42, C:0.12, G:0.24, T:0.22
Consensus pattern (15 bp):
ATGCAAATGCATGAG
Found at i:35682527 original size:22 final size:21
Alignment explanation
Indices: 35682485--35682527 Score: 50
Period size: 22 Copynumber: 2.0 Consensus size: 21
35682475 AAATCTATTG
* **
35682485 AAAATAATTAACATTTGACAT
1 AAAATAATTAAAATTCAACAT
35682506 AAAATTAATTAAAATTCAACAT
1 AAAA-TAATTAAAATTCAACAT
35682528 GTTCATAATT
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
21 4 0.22
22 14 0.78
ACGTcount: A:0.56, C:0.09, G:0.02, T:0.33
Consensus pattern (21 bp):
AAAATAATTAAAATTCAACAT
Found at i:35683342 original size:38 final size:38
Alignment explanation
Indices: 35683290--35683368 Score: 149
Period size: 38 Copynumber: 2.1 Consensus size: 38
35683280 CTAGTCAAGG
35683290 CAACAATCCACGAAAAGAAAGATTCATAATATAAAAAT
1 CAACAATCCACGAAAAGAAAGATTCATAATATAAAAAT
*
35683328 CAACAATCCGCGAAAAGAAAGATTCATAATATAAAAAT
1 CAACAATCCACGAAAAGAAAGATTCATAATATAAAAAT
35683366 CAA
1 CAA
35683369 TCTTTAAAAC
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
38 40 1.00
ACGTcount: A:0.57, C:0.16, G:0.09, T:0.18
Consensus pattern (38 bp):
CAACAATCCACGAAAAGAAAGATTCATAATATAAAAAT
Found at i:35685354 original size:29 final size:27
Alignment explanation
Indices: 35685292--35685357 Score: 71
Period size: 29 Copynumber: 2.3 Consensus size: 27
35685282 TCAAATTTAA
*
35685292 AAAATATATACTTGATTTTTTATTTGTT
1 AAAATATATAATTGATTTTTTATTTG-T
35685320 ATAAATATATAATTGGATTTTTTACATTTG-
1 A-AAATATATAATT-GATTTTTT--ATTTGT
35685350 AAAATATA
1 AAAATATA
35685358 ATTTTGTAGG
Statistics
Matches: 33, Mismatches: 1, Indels: 7
0.80 0.02 0.17
Matches are distributed among these distances:
28 1 0.03
29 18 0.55
30 9 0.27
32 5 0.15
ACGTcount: A:0.39, C:0.03, G:0.08, T:0.50
Consensus pattern (27 bp):
AAAATATATAATTGATTTTTTATTTGT
Found at i:35688700 original size:14 final size:14
Alignment explanation
Indices: 35688669--35688702 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
35688659 AGGCTACAAA
**
35688669 AGAAAAGAGTAATT
1 AGAAAAGAGTAACC
35688683 AGAAAAGAGTAACC
1 AGAAAAGAGTAACC
35688697 AGAAAA
1 AGAAAA
35688703 ATGTTAAACC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.62, C:0.06, G:0.21, T:0.12
Consensus pattern (14 bp):
AGAAAAGAGTAACC
Found at i:35691746 original size:15 final size:15
Alignment explanation
Indices: 35691714--35691742 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
35691704 ATTTTCTGTG
35691714 TTTATTATGTGTGAA
1 TTTATTATGTGTGAA
35691729 TTTA-TATGTGTGAA
1 TTTATTATGTGTGAA
35691743 ATTTTCGTGT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.28, C:0.00, G:0.21, T:0.52
Consensus pattern (15 bp):
TTTATTATGTGTGAA
Found at i:35692557 original size:29 final size:29
Alignment explanation
Indices: 35692525--35692583 Score: 118
Period size: 29 Copynumber: 2.0 Consensus size: 29
35692515 GTTTTTGGAC
35692525 TAAATTTAATGAAATTATGTTTGAATGAG
1 TAAATTTAATGAAATTATGTTTGAATGAG
35692554 TAAATTTAATGAAATTATGTTTGAATGAG
1 TAAATTTAATGAAATTATGTTTGAATGAG
35692583 T
1 T
35692584 TTAATTTGAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.41, C:0.00, G:0.17, T:0.42
Consensus pattern (29 bp):
TAAATTTAATGAAATTATGTTTGAATGAG
Found at i:35692946 original size:43 final size:43
Alignment explanation
Indices: 35692898--35693145 Score: 209
Period size: 43 Copynumber: 6.0 Consensus size: 43
35692888 CATAGGATTT
*
35692898 TCGATATGTG-TTCTCCTGTAAGACCATGTCTGGGACGTTGGCA
1 TCGATATGTGATT-TCGTGTAAGACCATGTCTGGGACGTTGGCA
* * *
35692941 TCGATATGTGATTACGTGTAAGACCA----TAGGA--TT---T
1 TCGATATGTGATTTCGTGTAAGACCATGTCTGGGACGTTGGCA
* * * *
35692975 TCAATATGTG-TTCTCGTGTAAGACCACGTCTGGGACATTGACA
1 TCGATATGTGATT-TCGTGTAAGACCATGTCTGGGACGTTGGCA
* * *
35693018 TCGATATGTGATTACGTGAAAGACCATGTCTGGGACATTGGCA
1 TCGATATGTGATTTCGTGTAAGACCATGTCTGGGACGTTGGCA
* * *
35693061 TTG-TATTTGA-TTCGTGTAAAACCATGTCTGGGACAG-TGGCA
1 TCGATATGTGATTTCGTGTAAGACCATGTCTGGGAC-GTTGGCA
* * **
35693102 TCGATATGTGATTGCATGTAAGACCATGTCTACGACGTTGGCA
1 TCGATATGTGATTTCGTGTAAGACCATGTCTGGGACGTTGGCA
35693145 T
1 T
35693146 TCTACGATAT
Statistics
Matches: 163, Mismatches: 26, Indels: 32
0.74 0.12 0.14
Matches are distributed among these distances:
33 2 0.01
34 21 0.13
37 2 0.01
38 4 0.02
39 4 0.02
40 2 0.01
41 28 0.17
42 13 0.08
43 83 0.51
44 4 0.02
ACGTcount: A:0.25, C:0.17, G:0.26, T:0.32
Consensus pattern (43 bp):
TCGATATGTGATTTCGTGTAAGACCATGTCTGGGACGTTGGCA
Found at i:35693020 original size:77 final size:77
Alignment explanation
Indices: 35692888--35693044 Score: 260
Period size: 77 Copynumber: 2.0 Consensus size: 77
35692878 TATGTCATGA
* * * *
35692888 CATAGGATTTTCGATATGTGTTCTCCTGTAAGACCATGTCTGGGACGTTGGCATCGATATGTGAT
1 CATAGGATTTTCAATATGTGTTCTCCTGTAAGACCACGTCTGGGACATTGACATCGATATGTGAT
*
35692953 TACGTGTAAGAC
66 TACGTGAAAGAC
*
35692965 CATAGGATTTTCAATATGTGTTCTCGTGTAAGACCACGTCTGGGACATTGACATCGATATGTGAT
1 CATAGGATTTTCAATATGTGTTCTCCTGTAAGACCACGTCTGGGACATTGACATCGATATGTGAT
35693030 TACGTGAAAGAC
66 TACGTGAAAGAC
35693042 CAT
1 CAT
35693045 GTCTGGGACA
Statistics
Matches: 74, Mismatches: 6, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
77 74 1.00
ACGTcount: A:0.26, C:0.17, G:0.24, T:0.32
Consensus pattern (77 bp):
CATAGGATTTTCAATATGTGTTCTCCTGTAAGACCACGTCTGGGACATTGACATCGATATGTGAT
TACGTGAAAGAC
Found at i:35693129 original size:84 final size:84
Alignment explanation
Indices: 35692988--35693146 Score: 228
Period size: 84 Copynumber: 1.9 Consensus size: 84
35692978 ATATGTGTTC
* * * **
35692988 TCGTGTAAGACCACGTCTGGGACATTGACATCGATATGTGATTACGTGAAAGACCATGTCTGGGA
1 TCGTGTAAAACCACGTCTGGGACAGTGACATCGATATGTGATTACATGAAAGACCATGTCTACGA
35693053 CATTGGCATTGTATTTGAT
66 CATTGGCATTGTATTTGAT
* * * *
35693072 TCGTGTAAAACCATGTCTGGGACAGTGGCATCGATATGTGATTGCATGTAAGACCATGTCTACGA
1 TCGTGTAAAACCACGTCTGGGACAGTGACATCGATATGTGATTACATGAAAGACCATGTCTACGA
*
35693137 CGTTGGCATT
66 CATTGGCATT
35693147 CTACGATATG
Statistics
Matches: 65, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
84 65 1.00
ACGTcount: A:0.26, C:0.18, G:0.26, T:0.30
Consensus pattern (84 bp):
TCGTGTAAAACCACGTCTGGGACAGTGACATCGATATGTGATTACATGAAAGACCATGTCTACGA
CATTGGCATTGTATTTGAT
Found at i:35695159 original size:10 final size:10
Alignment explanation
Indices: 35695144--35695176 Score: 66
Period size: 10 Copynumber: 3.3 Consensus size: 10
35695134 TATTTTAGTG
35695144 GATTATACAA
1 GATTATACAA
35695154 GATTATACAA
1 GATTATACAA
35695164 GATTATACAA
1 GATTATACAA
35695174 GAT
1 GAT
35695177 GAGTTATTCA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 23 1.00
ACGTcount: A:0.48, C:0.09, G:0.12, T:0.30
Consensus pattern (10 bp):
GATTATACAA
Found at i:35695357 original size:29 final size:27
Alignment explanation
Indices: 35695295--35695360 Score: 71
Period size: 29 Copynumber: 2.3 Consensus size: 27
35695285 TGAAATTTAA
*
35695295 AAAATATATACTTGATTTCTTATTTGC
1 AAAATATATAATTGATTTCTTATTTGC
35695322 TATAAATATATAATTAGATTTCTTACATTTG-
1 -A-AAATATATAATT-GATTTCTT--ATTTGC
35695353 AAAATATA
1 AAAATATA
35695361 ATTTTGTAAG
Statistics
Matches: 33, Mismatches: 1, Indels: 7
0.80 0.02 0.17
Matches are distributed among these distances:
28 1 0.03
29 18 0.55
30 9 0.27
32 5 0.15
ACGTcount: A:0.41, C:0.08, G:0.06, T:0.45
Consensus pattern (27 bp):
AAAATATATAATTGATTTCTTATTTGC
Found at i:35697278 original size:24 final size:25
Alignment explanation
Indices: 35697251--35697304 Score: 67
Period size: 24 Copynumber: 2.2 Consensus size: 25
35697241 GGATGTTCTT
*
35697251 ATTCCCGAGGTTGTGGAAG-TTTCG
1 ATTCCCGAGATTGTGGAAGTTTTCG
**
35697275 ATTCTTGAGATTGTGGAAGTTTTCG
1 ATTCCCGAGATTGTGGAAGTTTTCG
35697300 -TTCCC
1 ATTCCC
35697305 TAGGGCTATG
Statistics
Matches: 24, Mismatches: 5, Indels: 2
0.77 0.16 0.06
Matches are distributed among these distances:
24 19 0.79
25 5 0.21
ACGTcount: A:0.17, C:0.17, G:0.28, T:0.39
Consensus pattern (25 bp):
ATTCCCGAGATTGTGGAAGTTTTCG
Found at i:35697845 original size:34 final size:34
Alignment explanation
Indices: 35697802--35697871 Score: 122
Period size: 34 Copynumber: 2.1 Consensus size: 34
35697792 CTGTCCAAGC
* *
35697802 TCTTATTTCTCAATCTTGGATTCATTTTTGTCTA
1 TCTTATTTCTCAATCATGGATTCAATTTTGTCTA
35697836 TCTTATTTCTCAATCATGGATTCAATTTTGTCTA
1 TCTTATTTCTCAATCATGGATTCAATTTTGTCTA
35697870 TC
1 TC
35697872 ATTGCATTTC
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.20, C:0.19, G:0.09, T:0.53
Consensus pattern (34 bp):
TCTTATTTCTCAATCATGGATTCAATTTTGTCTA
Found at i:35701087 original size:21 final size:21
Alignment explanation
Indices: 35701063--35701116 Score: 72
Period size: 21 Copynumber: 2.5 Consensus size: 21
35701053 TCATTTTCAG
*
35701063 CAACTTCTTCTTTTTCAGCAA
1 CAACTTCTTCTTTTGCAGCAA
* *
35701084 CAACTTCCTCTTTTGCAGCAG
1 CAACTTCTTCTTTTGCAGCAA
35701105 CAACTTCCTTCT
1 CAACTT-CTTCT
35701117 CAACAACAGT
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
21 24 0.86
22 4 0.14
ACGTcount: A:0.20, C:0.33, G:0.07, T:0.39
Consensus pattern (21 bp):
CAACTTCTTCTTTTGCAGCAA
Found at i:35701090 original size:18 final size:19
Alignment explanation
Indices: 35701056--35701124 Score: 61
Period size: 18 Copynumber: 3.6 Consensus size: 19
35701046 TTCTTTTTCA
**
35701056 TTTTCAGCAACTTCTTCT-
1 TTTTCAGCAACAACTTCTC
35701074 TTTTCAGCAACAACTTCCTC
1 TTTTCAGCAACAACTT-CTC
*
35701094 TTTTGCAGCAGCAACTTC-C
1 TTTT-CAGCAACAACTTCTC
* *
35701113 TTCTCAACAACA
1 TTTTCAGCAACA
35701125 GTATCCTCTT
Statistics
Matches: 42, Mismatches: 6, Indels: 6
0.78 0.11 0.11
Matches are distributed among these distances:
18 20 0.48
19 6 0.14
20 5 0.12
21 11 0.26
ACGTcount: A:0.25, C:0.32, G:0.07, T:0.36
Consensus pattern (19 bp):
TTTTCAGCAACAACTTCTC
Found at i:35711918 original size:22 final size:22
Alignment explanation
Indices: 35711890--35711939 Score: 91
Period size: 22 Copynumber: 2.3 Consensus size: 22
35711880 TCAAACGGTC
*
35711890 ACTGCACATTCTAGTGTTAGTG
1 ACTGCACATTCCAGTGTTAGTG
35711912 ACTGCACATTCCAGTGTTAGTG
1 ACTGCACATTCCAGTGTTAGTG
35711934 ACTGCA
1 ACTGCA
35711940 ATAACACTTC
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.24, C:0.22, G:0.22, T:0.32
Consensus pattern (22 bp):
ACTGCACATTCCAGTGTTAGTG
Found at i:35721861 original size:46 final size:46
Alignment explanation
Indices: 35721794--35721966 Score: 219
Period size: 46 Copynumber: 3.7 Consensus size: 46
35721784 AACCCGCCCC
*
35721794 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
* *
35721840 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT--T
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCATCCA
* *
35721888 TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
*
35721933 TAAGTGAAATCGGACTCAACTCAACGAGTTCGGA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
35721967 TGCTCAACCA
Statistics
Matches: 108, Mismatches: 10, Indels: 18
0.79 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 1 0.01
45 2 0.02
46 61 0.56
47 29 0.27
48 2 0.02
49 1 0.01
50 4 0.04
51 2 0.02
ACGTcount: A:0.31, C:0.27, G:0.20, T:0.22
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
Found at i:35721906 original size:93 final size:93
Alignment explanation
Indices: 35721799--35721969 Score: 324
Period size: 93 Copynumber: 1.8 Consensus size: 93
35721789 GCCCCTAAGT
*
35721799 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAAATCGGACTCAACTCAA
35721864 CGAGTTCGGATGCCTAGTTACATTTCAC
66 CGAGTTCGGATGCCTAGTTACATTTCAC
*
35721892 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAAATCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAAATCGGACTCAACTCAA
35721957 CGAGTTCGGATGC
66 CGAGTTCGGATGC
35721970 TCAACCATCC
Statistics
Matches: 76, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.30, C:0.28, G:0.20, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAAATCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATTTCAC
Found at i:35727785 original size:21 final size:21
Alignment explanation
Indices: 35727742--35727792 Score: 70
Period size: 21 Copynumber: 2.5 Consensus size: 21
35727732 TCCTTTTTCC
35727742 TTTTTT-TTTCTTTTGAAGTT
1 TTTTTTATTTCTTTTGAAGTT
*
35727762 TTTTTTATTTACTTTTTAAG-T
1 TTTTTTATTT-CTTTTGAAGTT
35727783 TTTTTTATTT
1 TTTTTTATTT
35727793 GTCCTTTGTT
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
20 6 0.21
21 14 0.50
22 8 0.29
ACGTcount: A:0.14, C:0.04, G:0.06, T:0.76
Consensus pattern (21 bp):
TTTTTTATTTCTTTTGAAGTT
Found at i:35727887 original size:22 final size:22
Alignment explanation
Indices: 35727829--35727941 Score: 108
Period size: 21 Copynumber: 5.1 Consensus size: 22
35727819 TATTGATTTA
* * *
35727829 TAAAATTTGAAATGTT-TATTT
1 TAAAATTTTAAATATTATTTTT
*
35727850 GAAATATTTTATAATATTATTTTT
1 TAAA-ATTTTA-AATATTATTTTT
35727874 TAAAATTTTAAATATATATTTTAT
1 TAAAATTTTAAATAT-TATTTT-T
35727898 T-AAA-TTTAAATATTATTTTT
1 TAAAATTTTAAATATTATTTTT
* *
35727918 T-AAATTTTAAATATAAATTTT
1 TAAAATTTTAAATATTATTTTT
35727939 TAA
1 TAA
35727942 TATCATAAAA
Statistics
Matches: 78, Mismatches: 7, Indels: 13
0.80 0.07 0.13
Matches are distributed among these distances:
20 5 0.06
21 24 0.31
22 20 0.26
23 20 0.26
24 9 0.12
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.55
Consensus pattern (22 bp):
TAAAATTTTAAATATTATTTTT
Found at i:35727914 original size:21 final size:21
Alignment explanation
Indices: 35727855--35727941 Score: 113
Period size: 21 Copynumber: 4.0 Consensus size: 21
35727845 TATTTGAAAT
35727855 ATTTTATAATATTATTTTTTAAA
1 ATTTTA-AATATTATTTTTT-AA
35727878 ATTTTAAATATATATTTTATTAA
1 ATTTTAAATAT-TATTTT-TTAA
35727901 A-TTTAAATATTATTTTTTAA
1 ATTTTAAATATTATTTTTTAA
* *
35727921 ATTTTAAATATAAATTTTTAA
1 ATTTTAAATATTATTTTTTAA
35727942 TATCATAAAA
Statistics
Matches: 59, Mismatches: 2, Indels: 8
0.86 0.03 0.12
Matches are distributed among these distances:
20 5 0.08
21 23 0.39
22 14 0.24
23 15 0.25
24 2 0.03
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (21 bp):
ATTTTAAATATTATTTTTTAA
Found at i:35728025 original size:13 final size:13
Alignment explanation
Indices: 35728007--35728032 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
35727997 TATTTTTATA
35728007 ATATTTTAAATAT
1 ATATTTTAAATAT
35728020 ATATTTTAAATAT
1 ATATTTTAAATAT
35728033 TTTTTAATTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (13 bp):
ATATTTTAAATAT
Found at i:35730362 original size:46 final size:46
Alignment explanation
Indices: 35730310--35730483 Score: 205
Period size: 46 Copynumber: 3.8 Consensus size: 46
35730300 TATTTGGGCA
*
35730310 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
* * * *
35730356 TCCGAGCTCATTGAGTTGAGTCCGAG-T---TTGTGAGATGTAACTAGG
1 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATG-GATGCAA--ATG
*
35730401 CATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
1 --TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
35730449 -CTCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTAT
1 TC-CGAGCTCGTTGAGTTGAGTCCGAGTTCACTTAT
35730484 TAGCGGGTTA
Statistics
Matches: 109, Mismatches: 9, Indels: 20
0.79 0.07 0.14
Matches are distributed among these distances:
42 4 0.04
43 5 0.05
45 4 0.04
46 58 0.53
47 25 0.23
48 3 0.03
50 6 0.06
51 4 0.04
ACGTcount: A:0.21, C:0.20, G:0.29, T:0.30
Consensus pattern (46 bp):
TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
Found at i:35730465 original size:93 final size:93
Alignment explanation
Indices: 35730306--35730476 Score: 299
Period size: 93 Copynumber: 1.8 Consensus size: 93
35730296 AGGATATTTG
* *
35730306 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAGCTCATTGAG
1 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGTCCGAGCTCATTGAG
35730371 TTGAGTCCGAGTTTGTGAGATGTAACTA
66 TTGAGTCCGAGTTTGTGAGATGTAACTA
*
35730399 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG-CTCGAGCTCGTTGA
1 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGTC-CGAGCTCATTGA
35730463 GTTGAGTCCGAGTT
65 GTTGAGTCCGAGTT
35730477 CACTTATTAG
Statistics
Matches: 74, Mismatches: 3, Indels: 2
0.94 0.04 0.03
Matches are distributed among these distances:
92 1 0.01
93 73 0.99
ACGTcount: A:0.20, C:0.20, G:0.30, T:0.29
Consensus pattern (93 bp):
GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGTCCGAGCTCATTGAG
TTGAGTCCGAGTTTGTGAGATGTAACTA
Found at i:35746057 original size:26 final size:26
Alignment explanation
Indices: 35746028--35746077 Score: 68
Period size: 26 Copynumber: 1.9 Consensus size: 26
35746018 CTGGGCATTT
35746028 TATGTGTAC-ATTT-ATTCTCAGAAGTA
1 TATGTG-ACTATTTAATT-TCAGAAGTA
35746054 TATGTGACTATTTAATTTCAGAAG
1 TATGTGACTATTTAATTTCAGAAG
35746078 GAATTCTTAT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
25 2 0.09
26 17 0.77
27 3 0.14
ACGTcount: A:0.32, C:0.10, G:0.16, T:0.42
Consensus pattern (26 bp):
TATGTGACTATTTAATTTCAGAAGTA
Found at i:35751339 original size:13 final size:13
Alignment explanation
Indices: 35751323--35751348 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
35751313 ATATGTTTTA
35751323 TGATTGTTTTGGT
1 TGATTGTTTTGGT
35751336 TGATTGTTTTGGT
1 TGATTGTTTTGGT
35751349 ATGGGTTCAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.08, C:0.00, G:0.31, T:0.62
Consensus pattern (13 bp):
TGATTGTTTTGGT
Found at i:35761818 original size:25 final size:25
Alignment explanation
Indices: 35761772--35761819 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 25
35761762 TTCATGATTC
* * *
35761772 AATTAAATTAGTAATTATTTTCTAT
1 AATTAAATTAATAATAAATTTCTAT
*
35761797 AATTAATTTAATAATAAATTTCT
1 AATTAAATTAATAATAAATTTCT
35761820 CCAATCTGCA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 19 1.00
ACGTcount: A:0.44, C:0.04, G:0.02, T:0.50
Consensus pattern (25 bp):
AATTAAATTAATAATAAATTTCTAT
Found at i:35763032 original size:19 final size:19
Alignment explanation
Indices: 35762996--35763034 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
35762986 TATTATTAAT
**
35762996 ATATTTATAATTGTAATAA
1 ATATTTATAATTAAAATAA
*
35763015 ATATTTATTATTAAAATAA
1 ATATTTATAATTAAAATAA
35763034 A
1 A
35763035 ATTGAAATAT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.51, C:0.00, G:0.03, T:0.46
Consensus pattern (19 bp):
ATATTTATAATTAAAATAA
Found at i:35763066 original size:16 final size:18
Alignment explanation
Indices: 35763047--35763095 Score: 57
Period size: 21 Copynumber: 2.7 Consensus size: 18
35763037 TGAAATATTA
35763047 AATAATTTATTAA-A-AT
1 AATAATTTATTAATACAT
35763063 AATAATTTATATTAATTACAT
1 AATAA-TT-TATTAA-TACAT
35763084 AATAATTTATTA
1 AATAATTTATTA
35763096 TATGAATAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 7
0.80 0.00 0.20
Matches are distributed among these distances:
16 5 0.18
17 2 0.07
18 6 0.21
19 5 0.18
20 3 0.11
21 7 0.25
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (18 bp):
AATAATTTATTAATACAT
Found at i:35763792 original size:7 final size:7
Alignment explanation
Indices: 35763780--35763823 Score: 88
Period size: 7 Copynumber: 6.3 Consensus size: 7
35763770 TGATAACAAA
35763780 AAATTCC
1 AAATTCC
35763787 AAATTCC
1 AAATTCC
35763794 AAATTCC
1 AAATTCC
35763801 AAATTCC
1 AAATTCC
35763808 AAATTCC
1 AAATTCC
35763815 AAATTCC
1 AAATTCC
35763822 AA
1 AA
35763824 GTTACAATTT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 37 1.00
ACGTcount: A:0.45, C:0.27, G:0.00, T:0.27
Consensus pattern (7 bp):
AAATTCC
Found at i:35766438 original size:40 final size:40
Alignment explanation
Indices: 35766394--35766474 Score: 144
Period size: 40 Copynumber: 2.0 Consensus size: 40
35766384 TGAAAAACCA
35766394 TTTAAATCAAAACCACGCTCGTGTTTCCAAAAATAACCTT
1 TTTAAATCAAAACCACGCTCGTGTTTCCAAAAATAACCTT
**
35766434 TTTAAATCAAAACCGTGCTCGTGTTTCCAAAAATAACCTT
1 TTTAAATCAAAACCACGCTCGTGTTTCCAAAAATAACCTT
35766474 T
1 T
35766475 GTTTGCGTAA
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 39 1.00
ACGTcount: A:0.36, C:0.23, G:0.09, T:0.32
Consensus pattern (40 bp):
TTTAAATCAAAACCACGCTCGTGTTTCCAAAAATAACCTT
Found at i:35770680 original size:47 final size:47
Alignment explanation
Indices: 35770556--35770683 Score: 166
Period size: 47 Copynumber: 2.7 Consensus size: 47
35770546 TATCGATAAG
* * * * * *
35770556 TACCTATACCATGGCCTGTAGCCAAATCAAAGTAATTTATCTCGGAG
1 TACCTATACCATGGCCCGTAGCCAAATCAAGGTAACTCATCTCGAAA
* * **
35770603 TATCTATACCATGGCCCGTAGCCAAATCAAGGTAACTCCTCTTTAAA
1 TACCTATACCATGGCCCGTAGCCAAATCAAGGTAACTCATCTCGAAA
35770650 TACCTATACCATGGCCCGTAGCCAAATCAAGGTA
1 TACCTATACCATGGCCCGTAGCCAAATCAAGGTA
35770684 TCATTCACAC
Statistics
Matches: 70, Mismatches: 11, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
47 70 1.00
ACGTcount: A:0.32, C:0.27, G:0.16, T:0.26
Consensus pattern (47 bp):
TACCTATACCATGGCCCGTAGCCAAATCAAGGTAACTCATCTCGAAA
Found at i:35773414 original size:6 final size:6
Alignment explanation
Indices: 35773384--35773508 Score: 73
Period size: 6 Copynumber: 20.3 Consensus size: 6
35773374 AAGAAACATT
* * * *
35773384 ATCAGA A-CTAGA ATCAAA ATGAGA ATCAGA ATCAGA ATCAG- GTGACAAA
1 ATCAGA ATC-AGA ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA AT--CAGA
* *
35773433 ATCAGA ATC-GAA ATCAAA ATCAGA ATTC-G- ATGACAGA ATCAGA ATCAGT
1 ATCAGA ATCAG-A ATCAGA ATCAGA A-TCAGA AT--CAGA ATCAGA ATCAGA
35773482 ATCAGGTA A-CAGA ATCAGA ATCAGA AT
1 ATCA-G-A ATCAGA ATCAGA ATCAGA AT
35773509 GTGAATGCAA
Statistics
Matches: 92, Mismatches: 12, Indels: 30
0.69 0.09 0.22
Matches are distributed among these distances:
4 1 0.01
5 6 0.07
6 72 0.78
7 9 0.10
8 4 0.04
ACGTcount: A:0.49, C:0.15, G:0.18, T:0.18
Consensus pattern (6 bp):
ATCAGA
Found at i:35773437 original size:19 final size:18
Alignment explanation
Indices: 35773413--35773478 Score: 62
Period size: 19 Copynumber: 3.6 Consensus size: 18
35773403 TGAGAATCAG
35773413 AATCAGAATCAGGTGACAA
1 AATCAGAATC-GGTGACAA
**
35773432 AATCAGAATC-GAAATCAA
1 AATCAGAATCGGTGA-CAA
* *
35773450 AATCAGAATTCGATGACAG
1 AATCAGAA-TCGGTGACAA
35773469 AATCAGAATC
1 AATCAGAATC
35773479 AGTATCAGGT
Statistics
Matches: 38, Mismatches: 6, Indels: 7
0.75 0.12 0.14
Matches are distributed among these distances:
17 2 0.05
18 13 0.34
19 22 0.58
20 1 0.03
ACGTcount: A:0.48, C:0.17, G:0.17, T:0.18
Consensus pattern (18 bp):
AATCAGAATCGGTGACAA
Found at i:35773440 original size:31 final size:30
Alignment explanation
Indices: 35773398--35773508 Score: 91
Period size: 31 Copynumber: 3.6 Consensus size: 30
35773388 GAACTAGAAT
*
35773398 CAAAATGAGAATCAGAATCAGAATCAGGTGA
1 CAAAATCAGAATCAGAATCAGAATCAGGT-A
* * *
35773429 CAAAATCAGAATC-GAAATCAAAATCAGAATT
1 CAAAATCAGAATCAG-AATCAGAATCAG-GTA
** *
35773460 CGATGA-CAGAATCAGAATCAGTATCAGGTAA
1 C-AAAATCAGAATCAGAATCAGAATCAGGT-A
*
35773491 CAGAATCAGAATCAGAAT
1 CAAAATCAGAATCAGAAT
35773509 GTGAATGCAA
Statistics
Matches: 62, Mismatches: 12, Indels: 12
0.72 0.14 0.14
Matches are distributed among these distances:
30 4 0.06
31 54 0.87
32 4 0.06
ACGTcount: A:0.49, C:0.15, G:0.18, T:0.18
Consensus pattern (30 bp):
CAAAATCAGAATCAGAATCAGAATCAGGTA
Found at i:35773448 original size:37 final size:37
Alignment explanation
Indices: 35773407--35773478 Score: 99
Period size: 37 Copynumber: 1.9 Consensus size: 37
35773397 TCAAAATGAG
* ** *
35773407 AATCAGAATCAGAATCAGGTGACAAAATCAGAATCGA
1 AATCAAAATCAGAATTCGATGACAAAATCAGAATCGA
*
35773444 AATCAAAATCAGAATTCGATGACAGAATCAGAATC
1 AATCAAAATCAGAATTCGATGACAAAATCAGAATC
35773479 AGTATCAGGT
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
37 30 1.00
ACGTcount: A:0.49, C:0.17, G:0.17, T:0.18
Consensus pattern (37 bp):
AATCAAAATCAGAATTCGATGACAAAATCAGAATCGA
Found at i:35773472 original size:25 final size:26
Alignment explanation
Indices: 35773444--35773508 Score: 80
Period size: 25 Copynumber: 2.6 Consensus size: 26
35773434 TCAGAATCGA
* *
35773444 AATCAAAATCAGAATTC-GATGACAG
1 AATCAGAATCAGAATTCAGATAACAG
* *
35773469 AATCAGAATCAGTA-TCAGGTAACAG
1 AATCAGAATCAGAATTCAGATAACAG
35773494 AATCAGAATCAGAAT
1 AATCAGAATCAGAAT
35773509 GTGAATGCAA
Statistics
Matches: 33, Mismatches: 5, Indels: 3
0.80 0.12 0.07
Matches are distributed among these distances:
24 2 0.06
25 31 0.94
ACGTcount: A:0.48, C:0.15, G:0.17, T:0.20
Consensus pattern (26 bp):
AATCAGAATCAGAATTCAGATAACAG
Found at i:35773695 original size:27 final size:26
Alignment explanation
Indices: 35773626--35773726 Score: 103
Period size: 27 Copynumber: 3.8 Consensus size: 26
35773616 AGCATGGCTG
** *
35773626 CCAGAACAGATATTGTAACAGAGTCA
1 CCAGAACAGATATTGTGGCAGAGCCA
35773652 CCAGATACAGATATTGTGGCAGAGCCA
1 CCAGA-ACAGATATTGTGGCAGAGCCA
* *
35773679 CCAGAATAGATATTTGTGGCATAGCCA
1 CCAGAACAGATA-TTGTGGCAGAGCCA
* * *
35773706 CTAGAAATAGATAATGTGGCA
1 CCAG-AACAGATATTGTGGCA
35773727 AAGGCACTTA
Statistics
Matches: 65, Mismatches: 7, Indels: 5
0.84 0.09 0.06
Matches are distributed among these distances:
26 11 0.17
27 46 0.71
28 8 0.12
ACGTcount: A:0.38, C:0.18, G:0.23, T:0.22
Consensus pattern (26 bp):
CCAGAACAGATATTGTGGCAGAGCCA
Found at i:35773734 original size:27 final size:26
Alignment explanation
Indices: 35773660--35773734 Score: 87
Period size: 27 Copynumber: 2.8 Consensus size: 26
35773650 CACCAGATAC
* *
35773660 AGATATTGTGGCAGAGCCACCAGAAT
1 AGATATTGTGGCAAAGCCACTAGAAT
*
35773686 AGATATTTGTGGCATAGCCACTAGAAAT
1 AGATA-TTGTGGCAAAGCCACTAG-AAT
* *
35773714 AGATAATGTGGCAAAGGCACT
1 AGATATTGTGGCAAAGCCACT
35773735 TAACAGAATA
Statistics
Matches: 42, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
26 5 0.12
27 29 0.69
28 8 0.19
ACGTcount: A:0.36, C:0.16, G:0.25, T:0.23
Consensus pattern (26 bp):
AGATATTGTGGCAAAGCCACTAGAAT
Found at i:35774418 original size:27 final size:27
Alignment explanation
Indices: 35774388--35774494 Score: 151
Period size: 27 Copynumber: 4.0 Consensus size: 27
35774378 GGGACAAAAT
* *
35774388 GGTAATTTTACCCTACAAGGGTATCTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
35774415 GGTAATTCTACCCTACATGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
35774442 GGTATTTCTACCCTACAAGGGTATTTT
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
35774469 GGTAATTCTACCTTACAGGGGTATTT
1 GGTAATTCTACCCTACAAGGGTATTT
35774495 TAGTAATTTT
Statistics
Matches: 71, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 71 1.00
ACGTcount: A:0.23, C:0.20, G:0.20, T:0.37
Consensus pattern (27 bp):
GGTAATTCTACCCTACAAGGGTATTTC
Found at i:35774572 original size:27 final size:27
Alignment explanation
Indices: 35774542--35774709 Score: 164
Period size: 27 Copynumber: 6.2 Consensus size: 27
35774532 ATAAATTGGA
*
35774542 GGTACTTTGGTAATTTTACAAGTCGA-G
1 GGTATTTTGGTAATTTTACAA-TCGAGG
** *
35774569 GGTATTTCAGTAATTTCACAAATC-AGG
1 GGTATTTTGGTAATTTTAC-AATCGAGG
* *
35774596 GGTATTTTGGTAATTTTACAAACTAGG
1 GGTATTTTGGTAATTTTACAATCGAGG
* * *
35774623 GGTATTTTGATAATTTTACAAACTAGG
1 GGTATTTTGGTAATTTTACAATCGAGG
*
35774650 GGTATTTTGGTAATTTTGCTAATCGA-G
1 GGTATTTTGGTAATTTTAC-AATCGAGG
* *
35774677 GGTATTTTGTTAATTTTTCTAATCGA-G
1 GGTATTTTGGTAATTTTAC-AATCGAGG
35774704 GGTATT
1 GGTATT
35774710 CAGTAATTTT
Statistics
Matches: 122, Mismatches: 15, Indels: 8
0.84 0.10 0.06
Matches are distributed among these distances:
26 4 0.03
27 112 0.92
28 6 0.05
ACGTcount: A:0.27, C:0.09, G:0.22, T:0.42
Consensus pattern (27 bp):
GGTATTTTGGTAATTTTACAATCGAGG
Found at i:35774653 original size:81 final size:81
Alignment explanation
Indices: 35774542--35774693 Score: 182
Period size: 81 Copynumber: 1.9 Consensus size: 81
35774532 ATAAATTGGA
* * *
35774542 GGTACTTTGGTAATTTTACAAGTCGAGGGTATTTCAGTAATTTCACAAATC-AGGGGTATTTTGG
1 GGTACTTTGATAATTTTACAACTAGAGGGTATTTCAGTAATTTCACAAATCGA-GGGTATTTTGG
35774606 TAATTTTACAAACTAGG
65 TAATTTTACAAACTAGG
* ** ** * *
35774623 GGTATTTTGATAATTTTACAAACTAG-GGGTATTTTGGTAATTTTGCTAATCGAGGGTATTTTGT
1 GGTACTTTGATAATTTTAC-AACTAGAGGGTATTTCAGTAATTTCACAAATCGAGGGTATTTTGG
35774687 TAATTTT
65 TAATTTT
35774694 TCTAATCGAG
Statistics
Matches: 59, Mismatches: 10, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
81 54 0.92
82 5 0.08
ACGTcount: A:0.28, C:0.09, G:0.22, T:0.42
Consensus pattern (81 bp):
GGTACTTTGATAATTTTACAACTAGAGGGTATTTCAGTAATTTCACAAATCGAGGGTATTTTGGT
AATTTTACAAACTAGG
Found at i:35774745 original size:27 final size:26
Alignment explanation
Indices: 35774708--35774761 Score: 81
Period size: 27 Copynumber: 2.0 Consensus size: 26
35774698 ATCGAGGGTA
*
35774708 TTCAGTAATTTTGTAAACCAAGAGTAT
1 TTCAGTAATTTGGTAAACCAA-AGTAT
*
35774735 TTCAGTAATTTGGTAAACTAAAGTAT
1 TTCAGTAATTTGGTAAACCAAAGTAT
35774761 T
1 T
35774762 CTAAACAGGG
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
26 6 0.24
27 19 0.76
ACGTcount: A:0.37, C:0.09, G:0.15, T:0.39
Consensus pattern (26 bp):
TTCAGTAATTTGGTAAACCAAAGTAT
Found at i:35782503 original size:22 final size:23
Alignment explanation
Indices: 35782478--35782537 Score: 77
Period size: 23 Copynumber: 2.7 Consensus size: 23
35782468 TTTTCTCTCA
*
35782478 TTTTTC-CTTTCTTTTTTTAAAT
1 TTTTTCTCTTTCATTTTTTAAAT
* *
35782500 TTTTTCTTTTTCATTTTTTAATT
1 TTTTTCTCTTTCATTTTTTAAAT
*
35782523 TTTTTCTTTTTCATT
1 TTTTTCTCTTTCATT
35782538 CTCACTCTTT
Statistics
Matches: 34, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
22 6 0.18
23 28 0.82
ACGTcount: A:0.12, C:0.12, G:0.00, T:0.77
Consensus pattern (23 bp):
TTTTTCTCTTTCATTTTTTAAAT
Found at i:35782548 original size:23 final size:23
Alignment explanation
Indices: 35782499--35782555 Score: 64
Period size: 23 Copynumber: 2.6 Consensus size: 23
35782489 TTTTTTTAAA
* *
35782499 TTTTTTCTTTTTCATTTTTTAAT
1 TTTTTTCTTTTTCATTTCTCAAT
*
35782522 TTTTTTCTTTTTCA-TTCTC-AC
1 TTTTTTCTTTTTCATTTCTCAAT
*
35782543 TCTTTTCTTTTTC
1 TTTTTTCTTTTTC
35782556 CCTCGCTTGA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
21 13 0.43
22 3 0.10
23 14 0.47
ACGTcount: A:0.09, C:0.18, G:0.00, T:0.74
Consensus pattern (23 bp):
TTTTTTCTTTTTCATTTCTCAAT
Found at i:35790316 original size:40 final size:42
Alignment explanation
Indices: 35790167--35790325 Score: 153
Period size: 42 Copynumber: 3.8 Consensus size: 42
35790157 CGTACCAATA
* ** ** *
35790167 CCATATCCCAGATACAGTCTTACATGTAATCTCATATCGATG
1 CCATATCCTAGATATGGTCTTACACATAGTCTCATATCGATG
* * * * *
35790209 CCAATAACCAAGCTATGGTCATACACGA-AATCTCATATCGATG
1 CC-ATATCCTAGATATGGTCTTACAC-ATAGTCTCATATCGATG
* *
35790252 CCATATCCTAGATATGGTCTTACACATAGTCTCATATTGATT
1 CCATATCCTAGATATGGTCTTACACATAGTCTCATATCGATG
*
35790294 CCATAT-C-AGATATGGTCTTACACGTAGTCTCA
1 CCATATCCTAGATATGGTCTTACACATAGTCTCA
35790326 GTAACCCTAA
Statistics
Matches: 98, Mismatches: 16, Indels: 8
0.80 0.13 0.07
Matches are distributed among these distances:
40 24 0.24
41 2 0.02
42 39 0.40
43 33 0.34
ACGTcount: A:0.31, C:0.25, G:0.13, T:0.31
Consensus pattern (42 bp):
CCATATCCTAGATATGGTCTTACACATAGTCTCATATCGATG
Found at i:35793004 original size:37 final size:37
Alignment explanation
Indices: 35792950--35793051 Score: 161
Period size: 36 Copynumber: 2.8 Consensus size: 37
35792940 CGAATAGTCC
*
35792950 CCACACGTAGTTATCGGGTCTTACCCGGACATAATCT
1 CCACACGTAGTCATCGGGTCTTACCCGGACATAATCT
*
35792987 CCAGACGTAGTCATCGGGTCTTA-CCGGACATAATCT
1 CCACACGTAGTCATCGGGTCTTACCCGGACATAATCT
* *
35793023 CCACACATAGTCATCGAGTCTTACCCGGA
1 CCACACGTAGTCATCGGGTCTTACCCGGA
35793052 ATATATTTCC
Statistics
Matches: 59, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
36 33 0.56
37 26 0.44
ACGTcount: A:0.25, C:0.30, G:0.20, T:0.25
Consensus pattern (37 bp):
CCACACGTAGTCATCGGGTCTTACCCGGACATAATCT
Found at i:35793314 original size:48 final size:48
Alignment explanation
Indices: 35793192--35793327 Score: 247
Period size: 47 Copynumber: 2.9 Consensus size: 48
35793182 ATATACACAC
35793192 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
*
35793240 ATC-CATACATATTTCACATTAGCCATTCGACTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
*
35793287 ATCTCATACATATTTCACATTAGCCATTTGGCTTTACCACA
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACA
35793328 CACATATATA
Statistics
Matches: 84, Mismatches: 3, Indels: 2
0.94 0.03 0.02
Matches are distributed among these distances:
47 46 0.55
48 38 0.45
ACGTcount: A:0.32, C:0.27, G:0.06, T:0.35
Consensus pattern (48 bp):
ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
Found at i:35796086 original size:11 final size:11
Alignment explanation
Indices: 35796070--35796101 Score: 55
Period size: 11 Copynumber: 2.9 Consensus size: 11
35796060 AGCAGGTGAA
35796070 ACTGGTGTCTC
1 ACTGGTGTCTC
35796081 ACTGGTGTCTC
1 ACTGGTGTCTC
*
35796092 ACTTGTGTCT
1 ACTGGTGTCT
35796102 AAATTCAGCA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.09, C:0.25, G:0.25, T:0.41
Consensus pattern (11 bp):
ACTGGTGTCTC
Found at i:35798501 original size:14 final size:14
Alignment explanation
Indices: 35798470--35798503 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
35798460 TAGAGATTCA
*
35798470 AACACAAGACCTCC
1 AACACAAGACCACC
*
35798484 AACACAAGACCACT
1 AACACAAGACCACC
35798498 AACACA
1 AACACA
35798504 CTAACTCCTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.50, C:0.38, G:0.06, T:0.06
Consensus pattern (14 bp):
AACACAAGACCACC
Found at i:35803199 original size:48 final size:48
Alignment explanation
Indices: 35803139--35803307 Score: 198
Period size: 48 Copynumber: 3.6 Consensus size: 48
35803129 AAGCTGACGC
* * * * *
35803139 CATGTCCTAGACAGGTCTTACACTAGCTTGTATATCGCGAGGCCGATA
1 CATGTCCCAGACATGTCTTACACTAGCTTATATATCTCGAGGCCGATG
* ** * *
35803187 CATGTCCCAGACATGTCTTACACTAGC-TCT-CGTCTCAATGCCGATG
1 CATGTCCCAGACATGTCTTACACTAGCTTATATATCTCGAGGCCGATG
* * * *
35803233 CATGTCCTAGACATGTCTTACACTGGCTTAAATATCTTGAGGCCGATG
1 CATGTCCCAGACATGTCTTACACTAGCTTATATATCTCGAGGCCGATG
35803281 CATGTCCCAGACATGTCTTACACTAGC
1 CATGTCCCAGACATGTCTTACACTAGC
35803308 ACACATATCA
Statistics
Matches: 99, Mismatches: 20, Indels: 4
0.80 0.16 0.03
Matches are distributed among these distances:
46 35 0.35
47 3 0.03
48 61 0.62
ACGTcount: A:0.24, C:0.28, G:0.20, T:0.28
Consensus pattern (48 bp):
CATGTCCCAGACATGTCTTACACTAGCTTATATATCTCGAGGCCGATG
Found at i:35803679 original size:30 final size:30
Alignment explanation
Indices: 35803643--35803699 Score: 87
Period size: 30 Copynumber: 1.9 Consensus size: 30
35803633 CATAATTGGG
* *
35803643 CAAAATGACAATTTTGCCCTTAGACTTTCA
1 CAAAATGACAATTTTACCCCTAGACTTTCA
*
35803673 CAAAATGACCATTTTACCCCTAGACTT
1 CAAAATGACAATTTTACCCCTAGACTT
35803700 GAAAATCAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.33, C:0.26, G:0.09, T:0.32
Consensus pattern (30 bp):
CAAAATGACAATTTTACCCCTAGACTTTCA
Found at i:35814134 original size:23 final size:24
Alignment explanation
Indices: 35814108--35814154 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 24
35814098 TGAAAATAAA
*
35814108 TTTATTAATCTTC-AATTCCATAT
1 TTTATTAATCATCTAATTCCATAT
* *
35814131 TTTATTCATCATCTAATTCTATAT
1 TTTATTAATCATCTAATTCCATAT
35814155 CTACTATTTT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
23 11 0.55
24 9 0.45
ACGTcount: A:0.30, C:0.17, G:0.00, T:0.53
Consensus pattern (24 bp):
TTTATTAATCATCTAATTCCATAT
Found at i:35814929 original size:46 final size:46
Alignment explanation
Indices: 35814857--35815015 Score: 160
Period size: 46 Copynumber: 3.4 Consensus size: 46
35814847 GTAAGCAAAA
* *
35814857 TCGGACTCAACTCAATGAGTTTGGATGTTCGCATCCATAAGTGAAC
1 TCGGACTCAACTCAACGAGTTCGGATGTTCGCATCCATAAGTGAAC
* * * * * *
35814903 TCGGACTCAACTCAACGAGTTCGGATGCCTAG-TTACATTTCA-CGAAC
1 TCGGACTCAACTCAACGAGTTCGGATG-TTCGCATCCA--TAAGTGAAC
* * **
35814950 TCAGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAAC
1 TCGGACTCAACTCAACGAGTTCGGATGTTCGCATCCATAAGTGAAC
*
35814996 TCGGACTCAACTCAAAGAGT
1 TCGGACTCAACTCAACGAGT
35815016 CCAGATGCCC
Statistics
Matches: 87, Mismatches: 21, Indels: 10
0.74 0.18 0.08
Matches are distributed among these distances:
45 2 0.02
46 51 0.59
47 32 0.37
48 2 0.02
ACGTcount: A:0.30, C:0.26, G:0.19, T:0.24
Consensus pattern (46 bp):
TCGGACTCAACTCAACGAGTTCGGATGTTCGCATCCATAAGTGAAC
Found at i:35816982 original size:20 final size:20
Alignment explanation
Indices: 35816926--35816983 Score: 55
Period size: 20 Copynumber: 2.9 Consensus size: 20
35816916 AATAATGAAT
*
35816926 AAATAGACAAAACAAAT-AA
1 AAATAGATAAAACAAATAAA
* * * *
35816945 AATTAAATTTAAATAAATAAA
1 AAATAGA-TAAAACAAATAAA
35816966 AAATAGATAAAACAAATA
1 AAATAGATAAAACAAATA
35816984 GATAATATTA
Statistics
Matches: 28, Mismatches: 9, Indels: 3
0.70 0.22 0.08
Matches are distributed among these distances:
19 5 0.18
20 16 0.57
21 7 0.25
ACGTcount: A:0.71, C:0.05, G:0.03, T:0.21
Consensus pattern (20 bp):
AAATAGATAAAACAAATAAA
Found at i:35817216 original size:24 final size:22
Alignment explanation
Indices: 35817184--35817228 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
35817174 TAATAAAGGA
35817184 AAATAAATAGTAAAACAAATGAAT
1 AAATAAATA--AAAACAAATGAAT
*
35817208 AAATAAATAAAAATAAATGAA
1 AAATAAATAAAAACAAATGAA
35817229 AATAAAATAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 11 0.55
24 9 0.45
ACGTcount: A:0.71, C:0.02, G:0.07, T:0.20
Consensus pattern (22 bp):
AAATAAATAAAAACAAATGAAT
Found at i:35818888 original size:52 final size:52
Alignment explanation
Indices: 35818825--35818950 Score: 180
Period size: 52 Copynumber: 2.4 Consensus size: 52
35818815 CTGCTCCACT
* ** *
35818825 GGGAGATAAGATTTGCTATCTTGTACCTTCAATTTGCTCTGCTCCAACTTTA
1 GGGAGATAAGATTTGCTATCTTGTACCTTCAATATGCTCTGCAACAACTTCA
*
35818877 GGGAGATAAGATTTGCTATCTTGTAGCTTCAATATGCTCTGCAACAACTTCA
1 GGGAGATAAGATTTGCTATCTTGTACCTTCAATATGCTCTGCAACAACTTCA
* * *
35818929 AGGAGATGAGATTCGCTATCTT
1 GGGAGATAAGATTTGCTATCTT
35818951 CAGTCTTCTC
Statistics
Matches: 66, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
52 66 1.00
ACGTcount: A:0.26, C:0.19, G:0.20, T:0.35
Consensus pattern (52 bp):
GGGAGATAAGATTTGCTATCTTGTACCTTCAATATGCTCTGCAACAACTTCA
Found at i:35819018 original size:44 final size:44
Alignment explanation
Indices: 35818967--35819339 Score: 284
Period size: 44 Copynumber: 8.4 Consensus size: 44
35818957 TCTCCACTAT
* * * *
35818967 AACTTCAGGGAGATAAGACTTATAACTTTAATTTTCTCTACTGC
1 AACTTCAGGGAGATAAGATTTATAACTTCAATCTACTCTACTGC
* * * *
35819011 AACTTCAGAGA-AGTAATATTTACTATA-TTCGATCTACTCCACTGC
1 AACTTCAGGGAGA-TAAGATTTA-TA-ACTTCAATCTACTCTACTGC
* * * *
35819056 AACTTTAGGAAGATAAGATCTATAACTTCAA-CTTGCTCTACTGC
1 AACTTCAGGGAGATAAGATTTATAACTTCAATC-TACTCTACTGC
* * * * *
35819100 AACTTCAGAGAGATAAGGTTTATAGCTTTAATCAACTCTACTGC
1 AACTTCAGGGAGATAAGATTTATAACTTCAATCTACTCTACTGC
* * * * * * * *
35819144 AACTTCAGAGAGATAATATTTGCTATCTTCGACCTACTCCACTAC
1 AACTTCAGGGAGATAAGATTT-ATAACTTCAATCTACTCTACTGC
* * * * *
35819189 AACTTCAGGTAGATAAGATCTATAACTTCAATCTGCTCCACTGT
1 AACTTCAGGGAGATAAGATTTATAACTTCAATCTACTCTACTGC
* * * * * * * *
35819233 AACTTTAGGGAGGTAAAACTTATAGCTTTAATCTGCTTTACTGC
1 AACTTCAGGGAGATAAGATTTATAACTTCAATCTACTCTACTGC
* * * *
35819277 AACTTCAGAGAGATAAGATTTGCTATCTTCGATCTACTCTACTGC
1 AACTTCAGGGAGATAAGATTT-ATAACTTCAATCTACTCTACTGC
*
35819322 AACTTTAGGGAGATAAGA
1 AACTTCAGGGAGATAAGA
35819340 CTTACCACAA
Statistics
Matches: 250, Mismatches: 70, Indels: 17
0.74 0.21 0.05
Matches are distributed among these distances:
43 3 0.01
44 149 0.60
45 96 0.38
46 2 0.01
ACGTcount: A:0.32, C:0.20, G:0.15, T:0.33
Consensus pattern (44 bp):
AACTTCAGGGAGATAAGATTTATAACTTCAATCTACTCTACTGC
Found at i:35819072 original size:89 final size:88
Alignment explanation
Indices: 35818949--35819343 Score: 321
Period size: 89 Copynumber: 4.5 Consensus size: 88
35818939 ATTCGCTATC
* * ** * * ** *
35818949 TTCAGTCTTCTCCACTATAACTTCAGGGAGATAAGACTTATAACTTTAATTTTCTCTACTGCAAC
1 TTCAATCTACTCCACTGCAACTTTAGGGAGATAAGACTTATAACTTCAACCTGCTCTACTGCAAC
*
35819014 TTCAGAGA-AGTAATATTTACTATA
66 TTCAGAGAGA-TAAGATTTA-TATA
* * *
35819038 TTCGATCTACTCCACTGCAACTTTAGGAAGATAAGA-TCTATAACTTCAACTTGCTCTACTGCAA
1 TTCAATCTACTCCACTGCAACTTTAGGGAGATAAGACT-TATAACTTCAACCTGCTCTACTGCAA
* **
35819102 CTTCAGAGAGATAAGGTTTATAGC
65 CTTCAGAGAGATAAGATTTATATA
* * * * * * * * * * * * *
35819126 TTTAATCAACTCTACTGCAACTTCAGAGAGATAATATTTGCTATCTTCGACCTACTCCACTACAA
1 TTCAATCTACTCCACTGCAACTTTAGGGAGATAAGACTT-ATAACTTCAACCTGCTCTACTGCAA
*
35819191 CTTCAG-GTAGATAAGATCTATA-A
65 CTTCAGAG-AGATAAGATTTATATA
* * * * * * * *
35819214 CTTCAATCTGCTCCACTGTAACTTTAGGGAGGTAAAACTTATAGCTTTAATCTGCTTTACTGCAA
1 -TTCAATCTACTCCACTGCAACTTTAGGGAGATAAGACTTATAACTTCAACCTGCTCTACTGCAA
* *
35819279 CTTCAGAGAGATAAGATTTGCTATC
65 CTTCAGAGAGATAAGATTT-ATATA
* *
35819304 TTCGATCTACTCTACTGCAACTTTAGGGAGATAAGACTTA
1 TTCAATCTACTCCACTGCAACTTTAGGGAGATAAGACTTA
35819344 CCACAATGAC
Statistics
Matches: 237, Mismatches: 60, Indels: 18
0.75 0.19 0.06
Matches are distributed among these distances:
88 65 0.27
89 171 0.72
90 1 0.00
ACGTcount: A:0.32, C:0.21, G:0.14, T:0.33
Consensus pattern (88 bp):
TTCAATCTACTCCACTGCAACTTTAGGGAGATAAGACTTATAACTTCAACCTGCTCTACTGCAAC
TTCAGAGAGATAAGATTTATATA
Found at i:35819129 original size:133 final size:133
Alignment explanation
Indices: 35818948--35819339 Score: 509
Period size: 133 Copynumber: 2.9 Consensus size: 133
35818938 GATTCGCTAT
* * ** * * *
35818948 CTTCAGTCTTCTCCACTATAACTTCAGGGAGATAAGACTTATAACTTTAATTTTCTCTACTGCAA
1 CTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGACTTATAGCTTTAATCTACTCTACTGCAA
* *
35819013 CTTCAGAGA-AGTAATATTTACTATATTCGATCTACTCCACTGCAACTTTAGGAAGATAAGATCT
66 CTTCAGAGAGA-TAATATTTGCTATCTTCGATCTACTCCACTGCAACTTTAGGAAGATAAGATCT
35819077 ATAA
130 ATAA
* * ** *
35819081 CTTCAA-CTTGCTCTACTGCAACTTCAGAGAGATAAGGTTTATAGCTTTAATCAACTCTACTGCA
1 CTTCAATC-TGCTCCACTGCAACTTCAGGGAGATAAGACTTATAGCTTTAATCTACTCTACTGCA
* * * *
35819145 ACTTCAGAGAGATAATATTTGCTATCTTCGACCTACTCCACTACAACTTCAGGTAGATAAGATCT
65 ACTTCAGAGAGATAATATTTGCTATCTTCGATCTACTCCACTGCAACTTTAGGAAGATAAGATCT
35819210 ATAA
130 ATAA
* * * * * *
35819214 CTTCAATCTGCTCCACTGTAACTTTAGGGAGGTAAAACTTATAGCTTTAATCTGCTTTACTGCAA
1 CTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGACTTATAGCTTTAATCTACTCTACTGCAA
* * *
35819279 CTTCAGAGAGATAAGATTTGCTATCTTCGATCTACTCTACTGCAACTTTAGGGAGATAAGA
66 CTTCAGAGAGATAATATTTGCTATCTTCGATCTACTCCACTGCAACTTTAGGAAGATAAGA
35819340 CTTACCACAA
Statistics
Matches: 221, Mismatches: 35, Indels: 6
0.84 0.13 0.02
Matches are distributed among these distances:
132 1 0.00
133 218 0.99
134 2 0.01
ACGTcount: A:0.32, C:0.21, G:0.14, T:0.33
Consensus pattern (133 bp):
CTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGACTTATAGCTTTAATCTACTCTACTGCAA
CTTCAGAGAGATAATATTTGCTATCTTCGATCTACTCCACTGCAACTTTAGGAAGATAAGATCTA
TAA
Found at i:35822632 original size:24 final size:24
Alignment explanation
Indices: 35822600--35822646 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
35822590 AACACCTAAT
*
35822600 GATTTATATA-ATAACATATAAAAA
1 GATTAATATATATAA-ATATAAAAA
35822624 GATTAATATATATAAATATAAAA
1 GATTAATATATATAAATATAAAA
35822647 TAAAGTGAGT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 17 0.81
25 4 0.19
ACGTcount: A:0.60, C:0.02, G:0.04, T:0.34
Consensus pattern (24 bp):
GATTAATATATATAAATATAAAAA
Found at i:35823022 original size:28 final size:30
Alignment explanation
Indices: 35822980--35823046 Score: 79
Period size: 28 Copynumber: 2.3 Consensus size: 30
35822970 TATAAGTAAA
* *
35822980 AATAAGTATATAATATA-AGTTAAAATCTTT
1 AATAAGTATATAATATATAGATAAAA-ATTT
35823010 AATAA-TA-ATAATATATAGATAAAAATTT
1 AATAAGTATATAATATATAGATAAAAATTT
35823038 AAT-AGTATA
1 AATAAGTATA
35823047 AAAAATGACA
Statistics
Matches: 32, Mismatches: 2, Indels: 7
0.78 0.05 0.17
Matches are distributed among these distances:
27 1 0.03
28 16 0.50
29 10 0.31
30 5 0.16
ACGTcount: A:0.55, C:0.01, G:0.06, T:0.37
Consensus pattern (30 bp):
AATAAGTATATAATATATAGATAAAAATTT
Found at i:35823165 original size:16 final size:17
Alignment explanation
Indices: 35823144--35823185 Score: 59
Period size: 16 Copynumber: 2.5 Consensus size: 17
35823134 AAAAAGTATA
35823144 AATAATAATGT-AAAAT
1 AATAATAATGTAAAAAT
*
35823160 AATAATAATTTAAAAAT
1 AATAATAATGTAAAAAT
35823177 ATATAATAA
1 A-ATAATAA
35823186 ATATAATAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 10 0.43
17 6 0.26
18 7 0.30
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.33
Consensus pattern (17 bp):
AATAATAATGTAAAAAT
Found at i:35823203 original size:56 final size:61
Alignment explanation
Indices: 35823058--35823208 Score: 153
Period size: 56 Copynumber: 2.6 Consensus size: 61
35823048 AAAATGACAT
* * *
35823058 AATATAAAATAATTAT-ATAATATGAAGGT-ATATATGTATATAATATATAAATAATTAATA
1 AATATATAATAAATATAATAATATGAA-ATAATATATGTATATAATATATAAATAATTAATA
35823118 AATATATAATACAAGTA-AA-AAGTAT-AAATAATA-ATGTA-A-AATA-AT-AATAATTTAA-A
1 AATATATAATA-AA-TATAATAA-TATGAAATAATATATGTATATAATATATAAATAA-TTAATA
35823174 AATATATAATAAATATAATAATATGAAATAATATA
1 AATATATAATAAATATAATAATATGAAATAATATA
35823209 AGGTTAATAC
Statistics
Matches: 78, Mismatches: 3, Indels: 23
0.75 0.03 0.22
Matches are distributed among these distances:
54 2 0.03
55 7 0.09
56 27 0.35
57 7 0.09
58 4 0.05
59 1 0.01
60 16 0.21
61 8 0.10
62 6 0.08
ACGTcount: A:0.60, C:0.01, G:0.05, T:0.34
Consensus pattern (61 bp):
AATATATAATAAATATAATAATATGAAATAATATATGTATATAATATATAAATAATTAATA
Found at i:35823204 original size:13 final size:14
Alignment explanation
Indices: 35823143--35823206 Score: 53
Period size: 13 Copynumber: 4.6 Consensus size: 14
35823133 TAAAAAGTAT
*
35823143 AAATAATAAT-GTA
1 AAATAATAATAATA
*
35823156 AAATAATAATAATTT
1 AAATAATAATAA-TA
35823171 AAA-AATATATAATA
1 AAATAATA-ATAATA
*
35823185 AATATAATAAT-ATG
1 AA-ATAATAATAATA
35823199 AAATAATA
1 AAATAATA
35823207 TAAGGTTAAT
Statistics
Matches: 42, Mismatches: 4, Indels: 10
0.75 0.07 0.18
Matches are distributed among these distances:
13 16 0.38
14 11 0.26
15 11 0.26
16 4 0.10
ACGTcount: A:0.64, C:0.00, G:0.03, T:0.33
Consensus pattern (14 bp):
AAATAATAATAATA
Found at i:35823354 original size:20 final size:19
Alignment explanation
Indices: 35823326--35823367 Score: 50
Period size: 20 Copynumber: 2.2 Consensus size: 19
35823316 AAGAAGGTAT
35823326 TAAGTAAT-ATAATAAAATA
1 TAAGTAATAAT-ATAAAATA
*
35823345 TAAGTAAATAATATAAAGTA
1 TAAGT-AATAATATAAAATA
35823365 TAA
1 TAA
35823368 TACATATATT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
19 5 0.25
20 13 0.65
21 2 0.10
ACGTcount: A:0.62, C:0.00, G:0.07, T:0.31
Consensus pattern (19 bp):
TAAGTAATAATATAAAATA
Found at i:35836405 original size:24 final size:23
Alignment explanation
Indices: 35836354--35836399 Score: 67
Period size: 22 Copynumber: 2.0 Consensus size: 23
35836344 ATAACAAAGG
35836354 TAAATAAATAGTAAAACAAATGAA
1 TAAATAAATAG-AAAACAAATGAA
*
35836378 TAAATAAATA-AAAATAAATGAA
1 TAAATAAATAGAAAACAAATGAA
35836400 AATAAAATAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 11 0.52
24 10 0.48
ACGTcount: A:0.70, C:0.02, G:0.07, T:0.22
Consensus pattern (23 bp):
TAAATAAATAGAAAACAAATGAA
Found at i:35840524 original size:44 final size:45
Alignment explanation
Indices: 35840460--35841226 Score: 219
Period size: 44 Copynumber: 16.8 Consensus size: 45
35840450 TGTTACATTG
* * * *
35840460 GATTAGTTCGCTTTAATCTGCTCCATTGCAATTTTAAGGAGATAA
1 GATTAGTTAGCTTCAATCTGCTCCACTGCAACTTTAAGGAGATAA
*
35840505 GATTAG-TAGCTTCAATCTGCTCCACTGCAACTTTAGGGAGATAA
1 GATTAGTTAGCTTCAATCTGCTCCACTGCAACTTTAAGGAGATAA
* * * * *
35840549 GATTTGCTATCTTGTAGCTTCAATCTGCTCCGCTACAACTTTAGGGAAATAA
1 GA--T--TA--GT-TAGCTTCAATCTGCTCCACTGCAACTTTAAGGAGATAA
* * *
35840601 GATTTGCTATCTTGTACCTTCAATCTGCTCCACTGCAACTTTAAGGAGAGAA
1 GA--T--TA--GT-TAGCTTCAATCTGCTCCACTGCAACTTTAAGGAGATAA
*** * *
35840653 GATTTGCTATGTTGTAGCTTCAATCTGCTATGCTACAA-TTTCAAGGAGATGA
1 GA--T--TA-G-T-TAGCTTCAATCTGCTCCACTGCAACTTT-AAGGAGATAA
* * * * * ***
35840705 GATTTGTTATCTTCAGTCTGCTCTACTGTAACTTCGGGGAGATAA
1 GATTAGTTAGCTTCAATCTGCTCCACTGCAACTTTAAGGAGATAA
* * * *
35840750 GACTTA--TAGCTTTAATCTGCTCTATTGCAAAC--TCAGAGAGATAA
1 GA-TTAGTTAGCTTCAATCTGCTCCACTGC-AACTTTAAG-GAGATAA
* * * ** * *
35840794 GATTTA-CTATCTTTAATCTATTCCACTGCAACTTCAGGGAGATAA
1 GA-TTAGTTAGCTTCAATCTGCTCCACTGCAACTTTAAGGAGATAA
** * * *
35840839 GATCTA--TAATTTCAATATGCTCTACTGCAAC-TTCAGAGAGATAA
1 GAT-TAGTTAGCTTCAATCTGCTCCACTGCAACTTTAAG-GAGATAA
* * * * * *
35840883 GGTT-TTTAGCTAT-AATCTACTCTACTACAAC-TTCAGAGAGATAA
1 GATTAGTTAGCT-TCAATCTGCTCCACTGCAACTTTAAG-GAGATAA
* * * * * * * * * *
35840927 TATTTGCTATCTTCGATTTACTCCACTTCAACTTCAGGGAGATAA
1 GATTAGTTAGCTTCAATCTGCTCCACTGCAACTTTAAGGAGATAA
* * * * * *
35840972 GATCTA-TAAG-TTCAATCTACTCCACTTCAACTTTAGGGGGGTAAA
1 GAT-TAGTTAGCTTCAATCTGCTCCACTGCAACTTTAAGGAGAT-AA
* * * * * *
35841017 AATTA--TAGCTTTAATCTACTCTACTGCAAC-TTCAGAGAGGTAA
1 GATTAGTTAGCTTCAATCTGCTCCACTGCAACTTTAAG-GAGATAA
* * * * * *
35841060 GATTTGGTATCTTCGATCTACTCCACTGCAACTTTAGGGAGATAA
1 GATTAGTTAGCTTCAATCTGCTCCACTGCAACTTTAAGGAGATAA
* * * * * *
35841105 GATCTA--TAGCTTCAATCTACTCCATTGAAACTTCAGGGAGGTAA
1 GAT-TAGTTAGCTTCAATCTGCTCCACTGCAACTTTAAGGAGATAA
* * * * * * *
35841149 AACTTA--TAGCTTTAATTTACTCTACTGCAACTTCAAAGAGATAA
1 GA-TTAGTTAGCTTCAATCTGCTCCACTGCAACTTTAAGGAGATAA
* * * * *
35841193 GATTTGCTATCTTCGATCTACTCCACTGCAACTT
1 GATTAGTTAGCTTCAATCTGCTCCACTGCAACTT
35841227 CGGGGAGATA
Statistics
Matches: 555, Mismatches: 131, Indels: 72
0.73 0.17 0.09
Matches are distributed among these distances:
43 16 0.03
44 246 0.44
45 150 0.27
46 14 0.03
47 1 0.00
48 3 0.01
50 1 0.00
51 3 0.01
52 121 0.22
ACGTcount: A:0.30, C:0.20, G:0.16, T:0.34
Consensus pattern (45 bp):
GATTAGTTAGCTTCAATCTGCTCCACTGCAACTTTAAGGAGATAA
Found at i:35840588 original size:52 final size:52
Alignment explanation
Indices: 35840510--35840717 Score: 274
Period size: 52 Copynumber: 4.0 Consensus size: 52
35840500 GATAAGATTA
* *
35840510 GTAGCTTCAATCTGCTCCACTGCAACTTTAGGGAGATAAGATTTGCTATCTT
1 GTAGCTTCAATCTGCTCCACTACAACTTTAAGGAGATAAGATTTGCTATCTT
* * *
35840562 GTAGCTTCAATCTGCTCCGCTACAACTTTAGGGAAATAAGATTTGCTATCTT
1 GTAGCTTCAATCTGCTCCACTACAACTTTAAGGAGATAAGATTTGCTATCTT
* * * *
35840614 GTACCTTCAATCTGCTCCACTGCAACTTTAAGGAGAGAAGATTTGCTATGTT
1 GTAGCTTCAATCTGCTCCACTACAACTTTAAGGAGATAAGATTTGCTATCTT
*** * *
35840666 GTAGCTTCAATCTGCTATGCTACAA-TTTCAAGGAGATGAGATTTGTTATCTT
1 GTAGCTTCAATCTGCTCCACTACAACTTT-AAGGAGATAAGATTTGCTATCTT
35840718 CAGTCTGCTC
Statistics
Matches: 136, Mismatches: 19, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
51 3 0.02
52 133 0.98
ACGTcount: A:0.26, C:0.20, G:0.19, T:0.35
Consensus pattern (52 bp):
GTAGCTTCAATCTGCTCCACTACAACTTTAAGGAGATAAGATTTGCTATCTT
Found at i:35840708 original size:104 final size:104
Alignment explanation
Indices: 35840514--35840717 Score: 311
Period size: 104 Copynumber: 2.0 Consensus size: 104
35840504 AGATTAGTAG
* * *
35840514 CTTCAATCTGCTCCACTGCAACTTTAGGGAGATAAGATTTGCTATCTTGTAGCTTCAATCTGCTC
1 CTTCAATCTGCTCCACTGCAACTTTAAGGAGAGAAGATTTGCTATCTTGTAGCTTCAATCTGCTA
*
35840579 CGCTACAACTTTAGGGAAATAAGATTTGCTATCTTGTAC
66 CGCTACAACTTTAAGGAAATAAGATTTGCTATCTTGTAC
*
35840618 CTTCAATCTGCTCCACTGCAACTTTAAGGAGAGAAGATTTGCTATGTTGTAGCTTCAATCTGCTA
1 CTTCAATCTGCTCCACTGCAACTTTAAGGAGAGAAGATTTGCTATCTTGTAGCTTCAATCTGCTA
* * * *
35840683 TGCTACAA-TTTCAAGGAGATGAGATTTGTTATCTT
66 CGCTACAACTTT-AAGGAAATAAGATTTGCTATCTT
35840718 CAGTCTGCTC
Statistics
Matches: 90, Mismatches: 9, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
103 3 0.03
104 87 0.97
ACGTcount: A:0.26, C:0.20, G:0.18, T:0.35
Consensus pattern (104 bp):
CTTCAATCTGCTCCACTGCAACTTTAAGGAGAGAAGATTTGCTATCTTGTAGCTTCAATCTGCTA
CGCTACAACTTTAAGGAAATAAGATTTGCTATCTTGTAC
Found at i:35840827 original size:89 final size:87
Alignment explanation
Indices: 35840729--35841196 Score: 368
Period size: 89 Copynumber: 5.3 Consensus size: 87
35840719 AGTCTGCTCT
* * *
35840729 ACTGTAACTTCGGGGAGATAAGACTTATAGCTTTAATCTGCTCTATTGCAAAC-TCAGAGAGATA
1 ACTGCAACTTCAGGGAGATAAGA-TTATAGCTTTAATCTACTCTATTGC-AACTTCAGAGAGATA
* *
35840793 AGATTTACTATCTTTAATCTATTCC
64 AGATTTA-TAGCTTTAATCTACTCC
* * * *
35840818 ACTGCAACTTCAGGGAGATAAGATCTATA-ATTTCAATATGCTCTACTGCAACTTCAGAGAGATA
1 ACTGCAACTTCAGGGAGATAAGAT-TATAGCTTT-AATCTACTCTATTGCAACTTCAGAGAGATA
* * * *
35840882 AGGTTTTTAGCTATAATCTACTCT
64 AGATTTATAGCTTTAATCTACTCC
* * * * * ** * * *
35840906 ACTACAACTTCAGAGAGATAATATTTGCTATCTTCGATTTACTCCACTT-CAACTTCAGGGAGAT
1 ACTGCAACTTCAGGGAGATAAGA-TT-ATAGCTTTAATCTACTCTA-TTGCAACTTCAGAGAGAT
* *
35840970 AAGATCTATAAG-TTCAATCTACTCC
63 AAGATTTAT-AGCTTTAATCTACTCC
* * * * * * *
35840995 ACTTCAACTTTAGGGGGGTAAAAATTATAGCTTTAATCTACTCTACTGCAACTTCAGAGAGGTAA
1 ACTGCAACTTCAGGGAGAT-AAGATTATAGCTTTAATCTACTCTATTGCAACTTCAGAGAGATAA
* * **
35841060 GATTTGGTATCTTCGATCTACTCC
65 GATTT-ATAGCTTTAATCTACTCC
* * * * * *
35841084 ACTGCAACTTTAGGGAGATAAGATCTATAGCTTCAATCTACTCCATTGAAACTTCAGGGAGGTAA
1 ACTGCAACTTCAGGGAGATAAGAT-TATAGCTTTAATCTACTCTATTGCAACTTCAGAGAGATAA
* * * *
35841149 AACTTATAGCTTTAATTTACTCT
65 GATTTATAGCTTTAATCTACTCC
**
35841172 ACTGCAACTTCAAAGAGATAAGATT
1 ACTGCAACTTCAGGGAGATAAGATT
35841197 TGCTATCTTC
Statistics
Matches: 298, Mismatches: 68, Indels: 28
0.76 0.17 0.07
Matches are distributed among these distances:
87 2 0.01
88 111 0.37
89 177 0.59
90 8 0.03
ACGTcount: A:0.32, C:0.19, G:0.16, T:0.33
Consensus pattern (87 bp):
ACTGCAACTTCAGGGAGATAAGATTATAGCTTTAATCTACTCTATTGCAACTTCAGAGAGATAAG
ATTTATAGCTTTAATCTACTCC
Found at i:35840880 original size:133 final size:133
Alignment explanation
Indices: 35840804--35841239 Score: 94
Period size: 133 Copynumber: 3.3 Consensus size: 133
35840794 GATTTACTAT
* * * * * * * * *
35840804 CTTTAATCTATTCCACTGCAACTTCAGGGAGATAAGATCT-ATAAT-TTCAATATGCTCTACTGC
1 CTTTAATCTACTCTACTGCAACTTCAGAGAGATAAGATTTGCT-ATCTTCGATCTACTCCACTGC
* * * * * * * * * *
35840867 AACTTCAGAGAGATAAGGTTTTTAGCTAT-AATCTACTCTACTACAACTTCAGAGAGATAATATT
65 AACTTCAGGGAGATAAGATCTATAACT-TCAATCTACTCCACTGCAACTTCAGGGAGATAAAACT
* *
35840931 TGCTAT
129 T-ATAG
** * * * * * * ** * *
35840937 CTTCGATTTACTCCACTTCAACTTCAGGGAGATAAGATCT-ATAAGTTCAATCTACTCCACTTCA
1 CTTTAATCTACTCTACTGCAACTTCAGAGAGATAAGATTTGCTATCTTCGATCTACTCCACTGCA
* * * * * * * * * * *
35841001 ACTTTAGGGGGGTAAAAAT-TATAGCTTTAATCTACTCTACTGCAACTTCAGAGAGGTAAGATTT
66 ACTTCAGGGAGAT-AAGATCTATAACTTCAATCTACTCCACTGCAACTTCAGGGAGATAAAACTT
* *
35841065 GGTAT
130 -ATAG
** * * * * * * * * *
35841070 CTTCGATCTACTCCACTGCAACTTTAGGGAGATAAGATCT-ATAGCTTCAATCTACTCCATTGAA
1 CTTTAATCTACTCTACTGCAACTTCAGAGAGATAAGATTTGCTATCTTCGATCTACTCCACTGCA
* * * * * * ** * *
35841134 ACTTCAGGGAGGTAA-AACTTATAGCTTTAATTTACTCTACTGCAACTTCAAAGAGATAAGATTT
66 ACTTCAGGGAGATAAGATC-TATAACTTCAATCTACTCCACTGCAACTTCAGGGAGATAAAACTT
* *
35841198 GCTAT
130 -ATAG
** * * *
35841203 CTTCGATCTACTCCACTGCAACTTCGGGGAGATAAGA
1 CTTTAATCTACTCTACTGCAACTTCAGAGAGATAAGA
35841240 CTTACCACAA
Statistics
Matches: 260, Mismatches: 38, Indels: 10
0.84 0.12 0.03
Matches are distributed among these distances:
131 1 0.00
132 4 0.02
133 252 0.97
134 3 0.01
ACGTcount: A:0.32, C:0.20, G:0.16, T:0.33
Consensus pattern (133 bp):
CTTTAATCTACTCTACTGCAACTTCAGAGAGATAAGATTTGCTATCTTCGATCTACTCCACTGCA
ACTTCAGGGAGATAAGATCTATAACTTCAATCTACTCCACTGCAACTTCAGGGAGATAAAACTTA
TAG
Found at i:35841227 original size:266 final size:266
Alignment explanation
Indices: 35840753--35841239 Score: 688
Period size: 266 Copynumber: 1.8 Consensus size: 266
35840743 GAGATAAGAC
* * * *
35840753 TTATAGCTTTAATCTGCTCTATTGCAAACTCAGAGAGATAAGATTTACTATCTTTAATCTATTCC
1 TTATAGCTTTAATCTACTCTACTGCAAACTCAGAGAGATAAGATTTACTATCTTCAATCTACTCC
* * * *
35840818 ACTGCAACTTCAGGGAGATAAGATCTATAATTTCAATATGCTCTACTGCAACTTCAGAGAGATAA
66 ACTGCAACTTCAGGGAGATAAGATCTATAACTTCAATATACTCCACTGAAACTTCAGAGAGATAA
*** * * * *
35840883 GGTTTTTAGCTATAATCTACTCTACTACAACTTCAGAGAGATAATATTTGCTATCTTCGATTTAC
131 AACTTATAGCTATAATCTACTCTACTACAACTTCAAAGAGATAAGATTTGCTATCTTCGATCTAC
*
35840948 TCCACTTCAACTTCAGGGAGATAAGATCTATAAGTTCAATCTACTCCACTTCAACTTTAGGGGGG
196 TCCACTGCAACTTCAGGGAGATAAGATCTATAAGTTCAATCTACTCCACTTCAACTTTAGGGGGG
35841013 TAAAAA
261 TAAAAA
* ** *
35841019 TTATAGCTTTAATCTACTCTACTGC-AACTTCAGAGAGGTAAGATTTGGTATCTTCGATCTACTC
1 TTATAGCTTTAATCTACTCTACTGCAAAC-TCAGAGAGATAAGATTTACTATCTTCAATCTACTC
* * * * * *
35841083 CACTGCAACTTTAGGGAGATAAGATCTATAGCTTCAATCTACTCCATTGAAACTTCAGGGAGGTA
65 CACTGCAACTTCAGGGAGATAAGATCTATAACTTCAATATACTCCACTGAAACTTCAGAGAGATA
* * *
35841148 AAACTTATAGCTTTAATTTACTCTACTGCAACTTCAAAGAGATAAGATTTGCTATCTTCGATCTA
130 AAACTTATAGCTATAATCTACTCTACTACAACTTCAAAGAGATAAGATTTGCTATCTTCGATCTA
*
35841213 CTCCACTGCAACTTCGGGGAGATAAGA
195 CTCCACTGCAACTTCAGGGAGATAAGA
35841240 CTTACCACAA
Statistics
Matches: 190, Mismatches: 30, Indels: 2
0.86 0.14 0.01
Matches are distributed among these distances:
265 3 0.02
266 187 0.98
ACGTcount: A:0.32, C:0.20, G:0.15, T:0.33
Consensus pattern (266 bp):
TTATAGCTTTAATCTACTCTACTGCAAACTCAGAGAGATAAGATTTACTATCTTCAATCTACTCC
ACTGCAACTTCAGGGAGATAAGATCTATAACTTCAATATACTCCACTGAAACTTCAGAGAGATAA
AACTTATAGCTATAATCTACTCTACTACAACTTCAAAGAGATAAGATTTGCTATCTTCGATCTAC
TCCACTGCAACTTCAGGGAGATAAGATCTATAAGTTCAATCTACTCCACTTCAACTTTAGGGGGG
TAAAAA
Found at i:35843479 original size:40 final size:41
Alignment explanation
Indices: 35843400--35843504 Score: 106
Period size: 40 Copynumber: 2.6 Consensus size: 41
35843390 TCAGGGTTTA
* * * * * *
35843400 AATCCGAGCTTGGTCTCGAAGGGCTTTTGAGCCAGTGTCAT
1 AATCCGAACCTGGTTTCGAAGGGCCTTCGAGCCAATGTCAT
*
35843441 AA-CCGAACCTGGTTTCGAAGGGCCTTCGGGCCAATGTCAT
1 AATCCGAACCTGGTTTCGAAGGGCCTTCGAGCCAATGTCAT
* *
35843481 AATCCGAGCTTGGTCTT-GAAGGGC
1 AATCCGAACCTGGT-TTCGAAGGGC
35843505 TTTTTGAGTC
Statistics
Matches: 53, Mismatches: 9, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
40 33 0.62
41 18 0.34
42 2 0.04
ACGTcount: A:0.21, C:0.24, G:0.30, T:0.26
Consensus pattern (41 bp):
AATCCGAACCTGGTTTCGAAGGGCCTTCGAGCCAATGTCAT
Found at i:35851501 original size:41 final size:41
Alignment explanation
Indices: 35851443--35851592 Score: 169
Period size: 41 Copynumber: 3.7 Consensus size: 41
35851433 TCGGGGTTTA
* *
35851443 AATCCAAGCTTGCTCTCGAAGGGCTTTTGAACAAGTGTCAT
1 AATCCGAGCTTGGTCTCGAAGGGCTTTTGAACAAGTGTCAT
* *
35851484 AATCCGAGCTTGGTCTCGAAGGGCTTTTGAGCCAGTGTCAT
1 AATCCGAGCTTGGTCTCGAAGGGCTTTTGAACAAGTGTCAT
* * * * ** **
35851525 AA-CCGAACCTAGTTTCGAAGGGCCTTCGGGCCAA-TGTCAT
1 AATCCGAGCTTGGTCTCGAAGGG-CTTTTGAACAAGTGTCAT
35851565 AATCCGAGCTTGGTCTCGAAGGGCTTTT
1 AATCCGAGCTTGGTCTCGAAGGGCTTTT
35851593 TGAGTCAGCG
Statistics
Matches: 88, Mismatches: 19, Indels: 5
0.79 0.17 0.04
Matches are distributed among these distances:
40 27 0.31
41 61 0.69
ACGTcount: A:0.23, C:0.23, G:0.26, T:0.28
Consensus pattern (41 bp):
AATCCGAGCTTGGTCTCGAAGGGCTTTTGAACAAGTGTCAT
Found at i:35855253 original size:42 final size:42
Alignment explanation
Indices: 35855137--35855259 Score: 156
Period size: 42 Copynumber: 2.9 Consensus size: 42
35855127 GTCGGTGCCG
* * **
35855137 ATGCCATGTCCCAGACATGGTCTTACACGAGACCTCATATTG
1 ATGCCATGTCCCAGACATGGTCTTACACGAAATCTCATATCA
* *
35855179 ATGTCATGTCTCAGACATGGTCTTACACGAAATCTCATATCA
1 ATGCCATGTCCCAGACATGGTCTTACACGAAATCTCATATCA
* * * *
35855221 ATGCCATATCCCAGACATGGTCTAACATGAAATCACATA
1 ATGCCATGTCCCAGACATGGTCTTACACGAAATCTCATA
35855260 CCAAAGCCGA
Statistics
Matches: 69, Mismatches: 12, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
42 69 1.00
ACGTcount: A:0.32, C:0.26, G:0.15, T:0.27
Consensus pattern (42 bp):
ATGCCATGTCCCAGACATGGTCTTACACGAAATCTCATATCA
Found at i:35855273 original size:48 final size:48
Alignment explanation
Indices: 35855221--35855337 Score: 128
Period size: 48 Copynumber: 2.4 Consensus size: 48
35855211 TCTCATATCA
35855221 ATGCCATATCCCAGACATGGTCTAAC-ATGAAATCACATACCAAAGCCG
1 ATGCCATATCCCAGACATGGTCTAACAATGAAA-CACATACCAAAGCCG
* * * * * * *
35855269 ATGCCATTTCCCAGATATGGTCTTACAATGACACACATATCAATGCTG
1 ATGCCATATCCCAGACATGGTCTAACAATGAAACACATACCAAAGCCG
* * *
35855317 ATTCCATGTCCCATACATGGT
1 ATGCCATATCCCAGACATGGT
35855338 TTTACACGAG
Statistics
Matches: 57, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
48 52 0.91
49 5 0.09
ACGTcount: A:0.32, C:0.27, G:0.15, T:0.26
Consensus pattern (48 bp):
ATGCCATATCCCAGACATGGTCTAACAATGAAACACATACCAAAGCCG
Found at i:35868188 original size:6 final size:6
Alignment explanation
Indices: 35868154--35868309 Score: 108
Period size: 6 Copynumber: 25.3 Consensus size: 6
35868144 AAGAAACATT
* * * *
35868154 ATCAGA A-CTAGA ATCAAA ATCAAA ATCAGA ATCAGGTG AT-AGA ATCAAA
1 ATCAGA ATC-AGA ATCAGA ATCAGA ATCAGA ATCA-G-A ATCAGA ATCAGA
*
35868203 ATCAGA ATCAGA ATCAGA ATTAGGTA A-CAGA ATCAGA ATCAGA A-CTAGA
1 ATCAGA ATCAGA ATCAGA ATCA-G-A ATCAGA ATCAGA ATCAGA ATC-AGA
* * *
35868252 ATCAGA ATGAGGTA A-CAGA ATCAGA ATCAGT ATCAGGTA AT-AGA ATCAAA
1 ATCAGA ATCA-G-A ATCAGA ATCAGA ATCAGA ATCA-G-A ATCAGA ATCAGA
35868302 ATCAGA AT
1 ATCAGA AT
35868310 GTGAATGAAA
Statistics
Matches: 120, Mismatches: 14, Indels: 32
0.72 0.08 0.19
Matches are distributed among these distances:
5 11 0.09
6 91 0.76
7 10 0.08
8 8 0.07
ACGTcount: A:0.50, C:0.13, G:0.17, T:0.19
Consensus pattern (6 bp):
ATCAGA
Found at i:35868202 original size:25 final size:25
Alignment explanation
Indices: 35868171--35868309 Score: 119
Period size: 25 Copynumber: 5.6 Consensus size: 25
35868161 CTAGAATCAA
*
35868171 AATCAAAATCAGAATCAGGTGATAG
1 AATCAAAATCAGAATCAGGTAATAG
35868196 AATCAAAATCAGAATCA-G-AATCAG
1 AATCAAAATCAGAATCAGGTAAT-AG
* *
35868220 AATTAGGTAA-CAGAATCA-G-AATCAG
1 AATCA--AAATCAGAATCAGGTAAT-AG
* * *
35868245 AA-CTAGAATCAGAATGAGGTAACAG
1 AATC-AAAATCAGAATCAGGTAATAG
* *
35868270 AATCAGAATCAGTATCAGGTAATAG
1 AATCAAAATCAGAATCAGGTAATAG
35868295 AATCAAAATCAGAAT
1 AATCAAAATCAGAAT
35868310 GTGAATGAAA
Statistics
Matches: 94, Mismatches: 12, Indels: 16
0.77 0.10 0.13
Matches are distributed among these distances:
23 4 0.04
24 14 0.15
25 71 0.76
26 5 0.05
ACGTcount: A:0.50, C:0.13, G:0.18, T:0.19
Consensus pattern (25 bp):
AATCAAAATCAGAATCAGGTAATAG
Found at i:35868218 original size:37 final size:37
Alignment explanation
Indices: 35868163--35868287 Score: 162
Period size: 37 Copynumber: 3.4 Consensus size: 37
35868153 TATCAGAACT
* * * *
35868163 AGAATCAAAATCAAAATCAGAATCAGGTGATAGAATC
1 AGAATCAGAATCAGAATCAGAATCAGGTAACAGAATC
* *
35868200 AAAATCAGAATCAGAATCAGAATTAGGTAACAGAATC
1 AGAATCAGAATCAGAATCAGAATCAGGTAACAGAATC
*
35868237 AGAATCAGAA-CTAGAATCAGAATGAGGTAACAGAATC
1 AGAATCAGAATC-AGAATCAGAATCAGGTAACAGAATC
*
35868274 AGAATCAGTATCAG
1 AGAATCAGAATCAG
35868288 GTAATAGAAT
Statistics
Matches: 77, Mismatches: 9, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
36 1 0.01
37 75 0.97
38 1 0.01
ACGTcount: A:0.50, C:0.14, G:0.18, T:0.18
Consensus pattern (37 bp):
AGAATCAGAATCAGAATCAGAATCAGGTAACAGAATC
Found at i:35868235 original size:19 final size:19
Alignment explanation
Indices: 35868177--35868281 Score: 119
Period size: 19 Copynumber: 5.6 Consensus size: 19
35868167 TCAAAATCAA
* *
35868177 AATCAGAATCAGGTGATAG
1 AATCAGAATCAGGTAACAG
*
35868196 AATCAAAATCA-G-AATCAG
1 AATCAGAATCAGGTAA-CAG
*
35868214 AATCAGAATTAGGTAACAG
1 AATCAGAATCAGGTAACAG
35868233 AATCAGAATCA-G-AACTAG
1 AATCAGAATCAGGTAAC-AG
*
35868251 AATCAGAATGAGGTAACAG
1 AATCAGAATCAGGTAACAG
35868270 AATCAGAATCAG
1 AATCAGAATCAG
35868282 TATCAGGTAA
Statistics
Matches: 72, Mismatches: 8, Indels: 12
0.78 0.09 0.13
Matches are distributed among these distances:
17 4 0.06
18 25 0.35
19 38 0.53
20 5 0.07
ACGTcount: A:0.49, C:0.13, G:0.20, T:0.18
Consensus pattern (19 bp):
AATCAGAATCAGGTAACAG
Found at i:35868476 original size:27 final size:26
Alignment explanation
Indices: 35868428--35868487 Score: 66
Period size: 27 Copynumber: 2.3 Consensus size: 26
35868418 GCGAGGCTGC
*
35868428 CAGATATTGTGACGAAGTCACCAAATA
1 CAGATATTGTGACGAAGCCACCAAA-A
* * * *
35868455 CAGATATTGTGGCTAGGCCACCAGAA
1 CAGATATTGTGACGAAGCCACCAAAA
35868481 CAGATAT
1 CAGATAT
35868488 ATATATGGCG
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
26 8 0.29
27 20 0.71
ACGTcount: A:0.37, C:0.20, G:0.22, T:0.22
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAAAA
Found at i:35868586 original size:67 final size:69
Alignment explanation
Indices: 35868455--35868586 Score: 187
Period size: 69 Copynumber: 1.9 Consensus size: 69
35868445 TCACCAAATA
* * * *
35868455 CAGATATTGTGGCTAGGCCACCAGAACAGATATATATATGGCGAAGCCACTAGATTGCAGCGAGG
1 CAGATATTGTGACGAAGCCACCAGAACAGATATATATATGGCGAAGCCACCAGATTGCAGCGAGG
35868520 TTTC
66 TTTC
* * *
35868524 CAGATATTGTGACGAAGTCACCAGAACAGATA-A-ATGTGGCGAGGCCACCAGATTGCAGCGAGG
1 CAGATATTGTGACGAAGCCACCAGAACAGATATATATATGGCGAAGCCACCAGATTGCAGCGAGG
35868587 CTGCCAGAAC
Statistics
Matches: 56, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
67 27 0.48
68 1 0.02
69 28 0.50
ACGTcount: A:0.32, C:0.20, G:0.28, T:0.20
Consensus pattern (69 bp):
CAGATATTGTGACGAAGCCACCAGAACAGATATATATATGGCGAAGCCACCAGATTGCAGCGAGG
TTTC
Found at i:35868594 original size:67 final size:69
Alignment explanation
Indices: 35868455--35868594 Score: 185
Period size: 67 Copynumber: 2.1 Consensus size: 69
35868445 TCACCAAATA
* * * *
35868455 CAGATATTGTGGCTAGGCCACCAGAACAGATATATATATGGCGAAGCCACTAGATTGCAGCGAGG
1 CAGATATTGTGACGAAGCCACCAGAACAGATATATATATGGCGAAGCCACCAGATTGCAGCGAGG
* *
35868520 TTTC
66 CTGC
* * *
35868524 CAGATATTGTGACGAAGTCACCAGAACAGATA-A-ATGTGGCGAGGCCACCAGATTGCAGCGAGG
1 CAGATATTGTGACGAAGCCACCAGAACAGATATATATATGGCGAAGCCACCAGATTGCAGCGAGG
35868587 CTGC
66 CTGC
35868591 CAGA
1 CAGA
35868595 ACGCTTCCTC
Statistics
Matches: 62, Mismatches: 9, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
67 33 0.53
68 1 0.02
69 28 0.45
ACGTcount: A:0.31, C:0.21, G:0.28, T:0.19
Consensus pattern (69 bp):
CAGATATTGTGACGAAGCCACCAGAACAGATATATATATGGCGAAGCCACCAGATTGCAGCGAGG
CTGC
Found at i:35868841 original size:27 final size:27
Alignment explanation
Indices: 35868811--35868899 Score: 124
Period size: 27 Copynumber: 3.3 Consensus size: 27
35868801 AACACCCTAC
*
35868811 GGGTAAAATGGTAATTTTGTAAATCGA
1 GGGTAAAATAGTAATTTTGTAAATCGA
*
35868838 GGGTAAAGTAGTAATTTTGTAAATCGA
1 GGGTAAAATAGTAATTTTGTAAATCGA
* * *
35868865 GGGTAAAATAGTAATTCTGTCAATCAA
1 GGGTAAAATAGTAATTTTGTAAATCGA
*
35868892 TGGTAAAA
1 GGGTAAAA
35868900 CGATAATTCT
Statistics
Matches: 55, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 55 1.00
ACGTcount: A:0.39, C:0.06, G:0.24, T:0.31
Consensus pattern (27 bp):
GGGTAAAATAGTAATTTTGTAAATCGA
Found at i:35868933 original size:27 final size:27
Alignment explanation
Indices: 35868903--35869092 Score: 179
Period size: 27 Copynumber: 7.0 Consensus size: 27
35868893 GGTAAAACGA
* * *
35868903 TAATTCTATAAATCAGGGGTACTTTGG
1 TAATTTTACAAATCAGGGGTATTTTGG
* ***
35868930 TAATTTTACAAGTC-GAGGGTATTTCAA
1 TAATTTTACAAATCAG-GGGTATTTTGG
** *
35868957 TAATTTTACAGGTC-GAGGGTATTTTTG
1 TAATTTTACAAATCAG-GGGTATTTTGG
*
35868984 TAATTTCACAAATCAGGGGTATTTTGG
1 TAATTTTACAAATCAGGGGTATTTTGG
*
35869011 TAATTTTACAAA-CTAGGGGTATTTTGA
1 TAATTTTACAAATC-AGGGGTATTTTGG
*
35869038 TAATTTTACAAACCAGGGGTATTTTGG
1 TAATTTTACAAATCAGGGGTATTTTGG
** * *
35869065 TAATTTTGTAAACCAAGGGTATTTTGG
1 TAATTTTACAAATCAGGGGTATTTTGG
35869092 T
1 T
35869093 TTTGGTAAAC
Statistics
Matches: 138, Mismatches: 21, Indels: 8
0.83 0.13 0.05
Matches are distributed among these distances:
26 2 0.01
27 134 0.97
28 2 0.01
ACGTcount: A:0.29, C:0.09, G:0.22, T:0.39
Consensus pattern (27 bp):
TAATTTTACAAATCAGGGGTATTTTGG
Found at i:35869058 original size:81 final size:81
Alignment explanation
Indices: 35868912--35869070 Score: 205
Period size: 81 Copynumber: 2.0 Consensus size: 81
35868902 ATAATTCTAT
* * ***
35868912 AAATCAGGGGTACTTTGGTAATTTTACAAGTCGAGGGTATTTCAATAATTTTACAGGTCGAGGGT
1 AAATCAGGGGTACTTTGGTAATTTTACAACTAGAGGGTATTTCAATAATTTTACAAACCGAGGGT
*
35868977 ATTTTTGTAATTTCAC
66 ATTTTGGTAATTTCAC
* **
35868993 AAATCAGGGGTATTTTGGTAATTTTACAAACTAG-GGGTATTTTGATAATTTTACAAACC-AGGG
1 AAATCAGGGGTACTTTGGTAATTTTAC-AACTAGAGGGTATTTCAATAATTTTACAAACCGA-GG
35869056 GTATTTTGGTAATTT
64 GTATTTTGGTAATTT
35869071 TGTAAACCAA
Statistics
Matches: 67, Mismatches: 9, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
80 1 0.01
81 62 0.93
82 4 0.06
ACGTcount: A:0.30, C:0.09, G:0.22, T:0.39
Consensus pattern (81 bp):
AAATCAGGGGTACTTTGGTAATTTTACAACTAGAGGGTATTTCAATAATTTTACAAACCGAGGGT
ATTTTGGTAATTTCAC
Found at i:35871065 original size:6 final size:6
Alignment explanation
Indices: 35871047--35871202 Score: 124
Period size: 6 Copynumber: 25.3 Consensus size: 6
35871037 AAGAAACATT
* * *
35871047 ATCAGA A-CTAGA ATCAGA ATCAAA ATCAGA ATCAGA ATTAGA ATTAGGTA
1 ATCAGA ATC-AGA ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA ATCA-G-A
* *
35871097 A-CAGA ATCAGA ATCAGT ATCAGGTA A-CAGA ATCAGA ATCAGA ACCAGA
1 ATCAGA ATCAGA ATCAGA ATCA-G-A ATCAGA ATCAGA ATCAGA ATCAGA
* * *
35871145 ATCAGA ATGAGGTA A-CAGA ATCAGA ATCAGT ATCAGGTA A-CAGA ATCAAA
1 ATCAGA ATCA-G-A ATCAGA ATCAGA ATCAGA ATCA-G-A ATCAGA ATCAGA
35871195 ATCAGA AT
1 ATCAGA AT
35871203 GTGAATGCAA
Statistics
Matches: 122, Mismatches: 14, Indels: 28
0.74 0.09 0.17
Matches are distributed among these distances:
5 9 0.07
6 96 0.79
7 11 0.09
8 6 0.05
ACGTcount: A:0.49, C:0.15, G:0.18, T:0.19
Consensus pattern (6 bp):
ATCAGA
Found at i:35871107 original size:25 final size:25
Alignment explanation
Indices: 35871056--35871139 Score: 109
Period size: 25 Copynumber: 3.4 Consensus size: 25
35871046 TATCAGAACT
*
35871056 AGAATCAGAATCA--AAATCAGAATC
1 AGAATCAGAATCAGGTAA-CAGAATC
* *
35871080 AGAATTAGAATTAGGTAACAGAATC
1 AGAATCAGAATCAGGTAACAGAATC
*
35871105 AGAATCAGTATCAGGTAACAGAATC
1 AGAATCAGAATCAGGTAACAGAATC
35871130 AGAATCAGAA
1 AGAATCAGAA
35871140 CCAGAATCAG
Statistics
Matches: 51, Mismatches: 7, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
24 11 0.22
25 38 0.75
26 2 0.04
ACGTcount: A:0.50, C:0.13, G:0.18, T:0.19
Consensus pattern (25 bp):
AGAATCAGAATCAGGTAACAGAATC
Found at i:35871136 original size:62 final size:62
Alignment explanation
Indices: 35871061--35871202 Score: 248
Period size: 62 Copynumber: 2.3 Consensus size: 62
35871051 GAACTAGAAT
* *
35871061 CAGAATCAAAATCAGAATCAGAATTAGAATTAGGTAACAGAATCAGAATCAGTATCAGGTAA
1 CAGAATCAAAATCAGAATCAGAATCAGAATGAGGTAACAGAATCAGAATCAGTATCAGGTAA
* *
35871123 CAGAATCAGAATCAGAACCAGAATCAGAATGAGGTAACAGAATCAGAATCAGTATCAGGTAA
1 CAGAATCAAAATCAGAATCAGAATCAGAATGAGGTAACAGAATCAGAATCAGTATCAGGTAA
35871185 CAGAATCAAAATCAGAAT
1 CAGAATCAAAATCAGAAT
35871203 GTGAATGCAA
Statistics
Matches: 74, Mismatches: 6, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
62 74 1.00
ACGTcount: A:0.49, C:0.15, G:0.18, T:0.18
Consensus pattern (62 bp):
CAGAATCAAAATCAGAATCAGAATCAGAATGAGGTAACAGAATCAGAATCAGTATCAGGTAA
Found at i:35871139 original size:37 final size:37
Alignment explanation
Indices: 35871061--35871202 Score: 91
Period size: 37 Copynumber: 3.8 Consensus size: 37
35871051 GAACTAGAAT
* * *
35871061 CAGAATCAAAATCAGAATCAGAATTAGAATTAGGTAA
1 CAGAATCAGAATCAGAATCAGAATCAGAATCAGGTAA
*
35871098 CAGAATCAGAATCAGTATCAGGTAA-CAGAATCA-G-AA
1 CAGAATCAGAATCAGAATCA-G-AATCAGAATCAGGTAA
* *
35871134 TCAGAACCAGAATCAGAATGAGGTAA-CAGAATCA-G-AA
1 -CAGAATCAGAATCAGAATCA-G-AATCAGAATCAGGTAA
* *
35871171 TCAGTATCAGGTAA-CAGAATCAAAATCAGAAT
1 -CAGAATCA-G-AATCAGAATCAGAATCAGAAT
35871203 GTGAATGCAA
Statistics
Matches: 88, Mismatches: 11, Indels: 12
0.79 0.10 0.11
Matches are distributed among these distances:
36 4 0.05
37 65 0.74
38 15 0.17
39 4 0.05
ACGTcount: A:0.49, C:0.15, G:0.18, T:0.18
Consensus pattern (37 bp):
CAGAATCAGAATCAGAATCAGAATCAGAATCAGGTAA
Found at i:35871169 original size:25 final size:25
Alignment explanation
Indices: 35871135--35871203 Score: 102
Period size: 25 Copynumber: 2.8 Consensus size: 25
35871125 GAATCAGAAT
*
35871135 CAGAACCAGAATCAGAATGAGGTAA
1 CAGAATCAGAATCAGAATGAGGTAA
* *
35871160 CAGAATCAGAATCAGTATCAGGTAA
1 CAGAATCAGAATCAGAATGAGGTAA
*
35871185 CAGAATCAAAATCAGAATG
1 CAGAATCAGAATCAGAATG
35871204 TGAATGCAAT
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
25 38 1.00
ACGTcount: A:0.48, C:0.16, G:0.20, T:0.16
Consensus pattern (25 bp):
CAGAATCAGAATCAGAATGAGGTAA
Found at i:35871180 original size:31 final size:31
Alignment explanation
Indices: 35871070--35871202 Score: 122
Period size: 31 Copynumber: 4.5 Consensus size: 31
35871060 TCAGAATCAA
* *
35871070 AATCAGAATCAGAATTAGAATTAGGTAACAG
1 AATCAGAATCAGAATCAGAATCAGGTAACAG
35871101 AATCAGAATCAG--T----ATCAGGTAACAG
1 AATCAGAATCAGAATCAGAATCAGGTAACAG
* *
35871126 AATCAGAATCAGAACCAGAATCA-G-AATGAGG
1 AATCAGAATCAGAATCAGAATCAGGTAA-CA-G
*
35871157 TAA-CAGAATCAGAATCAGTATCAGGTAACAG
1 -AATCAGAATCAGAATCAGAATCAGGTAACAG
*
35871188 AATCAAAATCAGAAT
1 AATCAGAATCAGAAT
35871203 GTGAATGCAA
Statistics
Matches: 83, Mismatches: 7, Indels: 24
0.73 0.06 0.21
Matches are distributed among these distances:
25 23 0.28
29 3 0.04
30 4 0.05
31 47 0.57
32 4 0.05
33 2 0.02
ACGTcount: A:0.48, C:0.14, G:0.19, T:0.19
Consensus pattern (31 bp):
AATCAGAATCAGAATCAGAATCAGGTAACAG
Found at i:35871199 original size:19 final size:19
Alignment explanation
Indices: 35871104--35871174 Score: 101
Period size: 19 Copynumber: 3.8 Consensus size: 19
35871094 GTAACAGAAT
*
35871104 CAGAATCAGTATCAGGTAA
1 CAGAATCAGAATCAGGTAA
35871123 CAGAATCAGAATCA-G-AA
1 CAGAATCAGAATCAGGTAA
*
35871140 CCAGAATCAGAATGAGGTAA
1 -CAGAATCAGAATCAGGTAA
35871160 CAGAATCAGAATCAG
1 CAGAATCAGAATCAG
35871175 TATCAGGTAA
Statistics
Matches: 46, Mismatches: 3, Indels: 6
0.84 0.05 0.11
Matches are distributed among these distances:
17 2 0.04
18 14 0.30
19 28 0.61
20 2 0.04
ACGTcount: A:0.46, C:0.17, G:0.21, T:0.15
Consensus pattern (19 bp):
CAGAATCAGAATCAGGTAA
Found at i:35872802 original size:40 final size:40
Alignment explanation
Indices: 35872621--35872803 Score: 278
Period size: 40 Copynumber: 4.6 Consensus size: 40
35872611 TACTCGCTTG
* * * *
35872621 AATGCCTTCGGGGCATAGCCCAG-TTATAGTAACTCGCACC
1 AATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCACA
*
35872661 AATGCCTTCGGGACTTAGCCCGGATTTGGTAACTCGCACA
1 AATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACA
*
35872701 AATGCCTTCGGGACTTAGCCCGGATTTGGTAACTCGCACA
1 AATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACA
* *
35872741 AATGCCTTTGGGACTTAGCCCGGATTTAGTAGCTCGCACA
1 AATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACA
35872781 AATGCCTTCGGGACTTAGCCCGG
1 AATGCCTTCGGGACTTAGCCCGG
35872804 TTATCATTCG
Statistics
Matches: 133, Mismatches: 9, Indels: 2
0.92 0.06 0.01
Matches are distributed among these distances:
40 131 0.98
41 2 0.02
ACGTcount: A:0.22, C:0.28, G:0.25, T:0.25
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACA
Found at i:35875025 original size:27 final size:27
Alignment explanation
Indices: 35874995--35875100 Score: 140
Period size: 27 Copynumber: 3.9 Consensus size: 27
35874985 AACACCCTAG
*
35874995 GGGTAAAATGGTAATTTTGTAAATAGA
1 GGGTAAAATGGTAATTTTGTAAATCGA
*
35875022 GGGTAAAATCGTAATTTTGTAAATCGA
1 GGGTAAAATGGTAATTTTGTAAATCGA
* * *
35875049 GGGTAAAATAGTAATTCTGTCAATCGA
1 GGGTAAAATGGTAATTTTGTAAATCGA
* * *
35875076 GGGTAAAACGATAATTTTATAAATC
1 GGGTAAAATGGTAATTTTGTAAATC
35875101 AATGGTACTT
Statistics
Matches: 68, Mismatches: 11, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 68 1.00
ACGTcount: A:0.40, C:0.07, G:0.22, T:0.32
Consensus pattern (27 bp):
GGGTAAAATGGTAATTTTGTAAATCGA
Found at i:35875117 original size:54 final size:53
Alignment explanation
Indices: 35874995--35875134 Score: 140
Period size: 54 Copynumber: 2.6 Consensus size: 53
35874985 AACACCCTAG
* * * *
35874995 GGGTAAAATGGTAATTTTGTAAATAGAGGGTAAAATCGTAATTTTGTAAATCGA
1 GGGTAAAATGGTAA-TTTGTCAATCGAGGGTAAAATCGTAATTTTATAAATCAA
*
35875049 GGGTAAAATAGTAATTCTGTCAATCGAGGGTAAAA-CGATAATTTTATAAATCAA
1 GGGTAAAATGGTAATT-TGTCAATCGAGGGTAAAATCG-TAATTTTATAAATCAA
* ***
35875103 TGGTACTTTGGTAATTT-TACAAGTCGAGGGTA
1 GGGTAAAATGGTAATTTGT-CAA-TCGAGGGTA
35875135 TTTCAATAAT
Statistics
Matches: 72, Mismatches: 10, Indels: 8
0.80 0.11 0.09
Matches are distributed among these distances:
52 1 0.01
53 8 0.11
54 63 0.88
ACGTcount: A:0.37, C:0.07, G:0.23, T:0.33
Consensus pattern (53 bp):
GGGTAAAATGGTAATTTGTCAATCGAGGGTAAAATCGTAATTTTATAAATCAA
Found at i:35875134 original size:27 final size:27
Alignment explanation
Indices: 35875104--35875281 Score: 155
Period size: 27 Copynumber: 6.6 Consensus size: 27
35875094 ATAAATCAAT
* *
35875104 GGTACTTTGGTAATTTTACAAGTCGA-G
1 GGTATTTTGGTAATTTTACAA-TCTAGG
*** * *
35875131 GGTATTTCAATAATTTTACAGGTCGA-G
1 GGTATTTTGGTAATTTTACA-ATCTAGG
* *
35875158 GGTATTTTAGTAATTTCACAAAT-TAGG
1 GGTATTTTGGTAATTTTAC-AATCTAGG
*
35875185 GGTATTTTGGTAATTTTACAAACTAGG
1 GGTATTTTGGTAATTTTACAATCTAGG
* *
35875212 GGTATTTTGATAATTTTACAAACTAGG
1 GGTATTTTGGTAATTTTACAATCTAGG
** * * *
35875239 GGTATTTTGGTAATTTTGTAAACCAAG
1 GGTATTTTGGTAATTTTACAATCTAGG
35875266 GGTATTTTGGTAATTT
1 GGTATTTTGGTAATTT
35875282 GGTAAACTAA
Statistics
Matches: 128, Mismatches: 19, Indels: 8
0.83 0.12 0.05
Matches are distributed among these distances:
26 3 0.02
27 124 0.97
28 1 0.01
ACGTcount: A:0.29, C:0.08, G:0.22, T:0.41
Consensus pattern (27 bp):
GGTATTTTGGTAATTTTACAATCTAGG
Found at i:35875172 original size:81 final size:81
Alignment explanation
Indices: 35875087--35875281 Score: 214
Period size: 81 Copynumber: 2.4 Consensus size: 81
35875077 GGTAAAACGA
* * *
35875087 TAATTTTATAAATCAATGGTACTTTGGTAATTTTACAAGTCGA-GGGTATTTCAATAATTTTACA
1 TAATTTTATAAATCAAGGGTATTTTGGTAATTTTACAA-ACGAGGGGTATTTCAATAATTTTACA
**
35875151 GGTCGA-GGGTATTTTAG
65 -AACGAGGGGTATTTTAG
* * * * * **
35875168 TAATTTCACAAATTAGGGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTGATAATTTTACAA
1 TAATTTTATAAATCAAGGGTATTTTGGTAATTTTACAAACGAGGGGTATTTCAATAATTTTACAA
* *
35875233 ACTAGGGGTATTTTGG
66 ACGAGGGGTATTTTAG
* *
35875249 TAATTTTGTAAACCAAGGGTATTTTGGTAATTT
1 TAATTTTATAAATCAAGGGTATTTTGGTAATTT
35875282 GGTAAACTAA
Statistics
Matches: 92, Mismatches: 20, Indels: 4
0.79 0.17 0.03
Matches are distributed among these distances:
80 4 0.04
81 88 0.96
ACGTcount: A:0.31, C:0.08, G:0.20, T:0.42
Consensus pattern (81 bp):
TAATTTTATAAATCAAGGGTATTTTGGTAATTTTACAAACGAGGGGTATTTCAATAATTTTACAA
ACGAGGGGTATTTTAG
Found at i:35875288 original size:27 final size:27
Alignment explanation
Indices: 35875157--35875281 Score: 178
Period size: 27 Copynumber: 4.6 Consensus size: 27
35875147 TACAGGTCGA
* * *
35875157 GGGTATTTTAGTAATTTCACAAATTAG
1 GGGTATTTTGGTAATTTTACAAACTAG
35875184 GGGTATTTTGGTAATTTTACAAACTAG
1 GGGTATTTTGGTAATTTTACAAACTAG
*
35875211 GGGTATTTTGATAATTTTACAAACTAG
1 GGGTATTTTGGTAATTTTACAAACTAG
** * *
35875238 GGGTATTTTGGTAATTTTGTAAACCAA
1 GGGTATTTTGGTAATTTTACAAACTAG
35875265 GGGTATTTTGGTAATTT
1 GGGTATTTTGGTAATTT
35875282 GGTAAACTAA
Statistics
Matches: 89, Mismatches: 9, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 89 1.00
ACGTcount: A:0.30, C:0.06, G:0.22, T:0.42
Consensus pattern (27 bp):
GGGTATTTTGGTAATTTTACAAACTAG
Found at i:35875296 original size:26 final size:27
Alignment explanation
Indices: 35875240--35875297 Score: 82
Period size: 27 Copynumber: 2.2 Consensus size: 27
35875230 CAAACTAGGG
* *
35875240 GTATTTTGGTAATTTTGTAAACCAAGG
1 GTATTTTGGTAATTTGGTAAACCAAGA
*
35875267 GTATTTTGGTAATTTGGTAAACTAA-A
1 GTATTTTGGTAATTTGGTAAACCAAGA
35875293 GTATT
1 GTATT
35875298 CTAAACAGGG
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
26 5 0.18
27 23 0.82
ACGTcount: A:0.31, C:0.05, G:0.21, T:0.43
Consensus pattern (27 bp):
GTATTTTGGTAATTTGGTAAACCAAGA
Done.