Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A10
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: 111961792
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4980000 characters in sequence are not A, C, G, or T
File 183 of 344
Found at i:61171149 original size:23 final size:22
Alignment explanation
Indices: 61171107--61171171 Score: 62
Period size: 23 Copynumber: 2.9 Consensus size: 22
61171097 AATTTAGCCA
*
61171107 TTTATTTTTA-TTGTACTTTTATT
1 TTTATTTTTAGTT-TAATTTT-TT
61171130 TTTATTTTTAGTTTAATTTTTT
1 TTTATTTTTAGTTTAATTTTTT
*
61171152 TTCTAATTTTT-GTTTTATTT
1 TT-T-ATTTTTAGTTTAATTT
61171172 GCTTCTGGCA
Statistics
Matches: 37, Mismatches: 2, Indels: 6
0.82 0.04 0.13
Matches are distributed among these distances:
22 4 0.11
23 25 0.68
24 8 0.22
ACGTcount: A:0.17, C:0.03, G:0.05, T:0.75
Consensus pattern (22 bp):
TTTATTTTTAGTTTAATTTTTT
Found at i:61172357 original size:22 final size:23
Alignment explanation
Indices: 61172315--61172357 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
61172305 GTTTTCATTG
**
61172315 AAAACCTTTCTTAAAATAAAAGA
1 AAAACCTTAATTAAAATAAAAGA
61172338 AAAACCTTAATTAAAA-AAAA
1 AAAACCTTAATTAAAATAAAA
61172358 CCCTTTCAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 4 0.22
23 14 0.78
ACGTcount: A:0.63, C:0.12, G:0.02, T:0.23
Consensus pattern (23 bp):
AAAACCTTAATTAAAATAAAAGA
Found at i:61173447 original size:29 final size:29
Alignment explanation
Indices: 61173390--61173519 Score: 176
Period size: 29 Copynumber: 4.6 Consensus size: 29
61173380 TACCTGTATC
* *
61173390 TGGCCCATTAAGCCC-AATCA-TTTTCATA
1 TGGCCCATTAGGCCCAAATCACATTT-ATA
* *
61173418 TGGCCCATTAGGCCCAAATCACCTATATA
1 TGGCCCATTAGGCCCAAATCACATTTATA
61173447 TGGCCCATTAGGCCCAAATCACATTTATA
1 TGGCCCATTAGGCCCAAATCACATTTATA
*
61173476 TGGCCCGTTAGGCCCAAA-CACATTTATA
1 TGGCCCATTAGGCCCAAATCACATTTATA
*
61173504 TGGCCCGTTAGGCCCA
1 TGGCCCATTAGGCCCA
61173520 GTCACATACA
Statistics
Matches: 94, Mismatches: 6, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
28 40 0.43
29 52 0.55
30 2 0.02
ACGTcount: A:0.28, C:0.30, G:0.16, T:0.26
Consensus pattern (29 bp):
TGGCCCATTAGGCCCAAATCACATTTATA
Found at i:61173451 original size:57 final size:56
Alignment explanation
Indices: 61173381--61173526 Score: 177
Period size: 57 Copynumber: 2.6 Consensus size: 56
61173371 AAATTCACAT
* * * *
61173381 ACCTGTATCTGGCCCATTAAGCCCAATCA-TTTTCATATGGCCCATTAGGCCCAAATC
1 ACCTATATATGGCCCATTAGGCCCAATCACATTT-ATATGGCCCATTAGGCCCAAA-C
*
61173438 ACCTATATATGGCCCATTAGGCCCAAATCACATTTATATGGCCCGTTAGGCCCAAAC
1 ACCTATATATGGCCCATTAGGCCC-AATCACATTTATATGGCCCATTAGGCCCAAAC
* * * *
61173495 ACATTTATATGGCCCGTTAGGCCCAGTCACAT
1 ACCTATATATGGCCCATTAGGCCCAATCACAT
61173527 ACATATTCAT
Statistics
Matches: 78, Mismatches: 9, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
56 7 0.09
57 43 0.55
58 25 0.32
59 3 0.04
ACGTcount: A:0.27, C:0.30, G:0.16, T:0.27
Consensus pattern (56 bp):
ACCTATATATGGCCCATTAGGCCCAATCACATTTATATGGCCCATTAGGCCCAAAC
Found at i:61173726 original size:8 final size:8
Alignment explanation
Indices: 61173713--61173755 Score: 61
Period size: 8 Copynumber: 5.4 Consensus size: 8
61173703 TAGCCAAACA
61173713 TTCGGCTT
1 TTCGGCTT
*
61173721 TTCGGCAT
1 TTCGGCTT
61173729 TTCGGCTT
1 TTCGGCTT
61173737 TTCGGCATT
1 TTCGGC-TT
61173746 TT-GGCTT
1 TTCGGCTT
61173753 TTC
1 TTC
61173756 AGTTTTTTCT
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
7 4 0.13
8 23 0.74
9 4 0.13
ACGTcount: A:0.05, C:0.23, G:0.23, T:0.49
Consensus pattern (8 bp):
TTCGGCTT
Found at i:61173734 original size:16 final size:16
Alignment explanation
Indices: 61173713--61173755 Score: 77
Period size: 16 Copynumber: 2.7 Consensus size: 16
61173703 TAGCCAAACA
61173713 TTCGGCTTTTCGGCAT
1 TTCGGCTTTTCGGCAT
61173729 TTCGGCTTTTCGGCAT
1 TTCGGCTTTTCGGCAT
*
61173745 TTTGGCTTTTC
1 TTCGGCTTTTC
61173756 AGTTTTTTCT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 26 1.00
ACGTcount: A:0.05, C:0.23, G:0.23, T:0.49
Consensus pattern (16 bp):
TTCGGCTTTTCGGCAT
Found at i:61177086 original size:30 final size:30
Alignment explanation
Indices: 61177050--61177107 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
61177040 TAAAGGAAAT
* *
61177050 CACACACTACCTGGACACACGGTCGTGTGG
1 CACACACGACCTGGACACACGGGCGTGTGG
*
61177080 CACACACGGCCTGGACACACGGGCGTGT
1 CACACACGACCTGGACACACGGGCGTGT
61177108 ACATGGCCGT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.22, C:0.34, G:0.29, T:0.14
Consensus pattern (30 bp):
CACACACGACCTGGACACACGGGCGTGTGG
Found at i:61177263 original size:5 final size:5
Alignment explanation
Indices: 61177253--61177300 Score: 55
Period size: 5 Copynumber: 9.8 Consensus size: 5
61177243 AAGTAACCCC
* *
61177253 TTTTA TTTTA TTTTA TTTTA -TTTA TTATTA -TTTC TTATA TTTTA TTTT
1 TTTTA TTTTA TTTTA TTTTA TTTTA TT-TTA TTTTA TTTTA TTTTA TTTT
61177301 CTTATTTTTC
Statistics
Matches: 36, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
4 6 0.17
5 27 0.75
6 3 0.08
ACGTcount: A:0.21, C:0.02, G:0.00, T:0.77
Consensus pattern (5 bp):
TTTTA
Found at i:61177298 original size:24 final size:24
Alignment explanation
Indices: 61177266--61177315 Score: 75
Period size: 24 Copynumber: 2.1 Consensus size: 24
61177256 TATTTTATTT
61177266 TATTTTA-TTTATTATTATTTCTTA
1 TATTTTATTTTATTATT-TTTCTTA
*
61177290 TATTTTATTTTCTTATTTTTCTTA
1 TATTTTATTTTATTATTTTTCTTA
61177314 TA
1 TA
61177316 CTTAGATTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
24 16 0.67
25 8 0.33
ACGTcount: A:0.22, C:0.06, G:0.00, T:0.72
Consensus pattern (24 bp):
TATTTTATTTTATTATTTTTCTTA
Found at i:61177301 original size:15 final size:15
Alignment explanation
Indices: 61177261--61177309 Score: 59
Period size: 14 Copynumber: 3.4 Consensus size: 15
61177251 CCTTTTATTT
*
61177261 TATTTTATTTTATT-
1 TATTTTATTTTCTTA
61177275 TATTATTA-TTTCTTA
1 TATT-TTATTTTCTTA
61177290 TATTTTATTTTCTTA
1 TATTTTATTTTCTTA
61177305 T-TTTT
1 TATTTT
61177310 CTTATACTTA
Statistics
Matches: 31, Mismatches: 1, Indels: 6
0.82 0.03 0.16
Matches are distributed among these distances:
14 16 0.52
15 15 0.48
ACGTcount: A:0.20, C:0.04, G:0.00, T:0.76
Consensus pattern (15 bp):
TATTTTATTTTCTTA
Found at i:61179404 original size:42 final size:43
Alignment explanation
Indices: 61179299--61179409 Score: 134
Period size: 43 Copynumber: 2.6 Consensus size: 43
61179289 ATGTACAATG
* * * *
61179299 CCAATGTCCCAAACGTGGTCGTACATGTAATCAAATATCGATA
1 CCAATGTCCCAAACATGGTCTTACACGAAATCAAATATCGATA
* * * *
61179342 CCACTGTCCCAAATAGGGTCTTACACGAAATCAAATAT-GATG
1 CCAATGTCCCAAACATGGTCTTACACGAAATCAAATATCGATA
*
61179384 TCAATGTCCCAAACATGGTCTTACAC
1 CCAATGTCCCAAACATGGTCTTACAC
61179410 ATAAATCATA
Statistics
Matches: 56, Mismatches: 12, Indels: 1
0.81 0.17 0.01
Matches are distributed among these distances:
42 25 0.45
43 31 0.55
ACGTcount: A:0.34, C:0.25, G:0.15, T:0.25
Consensus pattern (43 bp):
CCAATGTCCCAAACATGGTCTTACACGAAATCAAATATCGATA
Found at i:61181389 original size:18 final size:17
Alignment explanation
Indices: 61181362--61181402 Score: 57
Period size: 18 Copynumber: 2.4 Consensus size: 17
61181352 TTTTTATTGT
61181362 TAAAAAAAATCAAA-AAA
1 TAAAAAAAAT-AAAGAAA
61181379 TAAAGAAAAATAAAGAAA
1 TAAA-AAAAATAAAGAAA
61181397 TAAAAA
1 TAAAAA
61181403 TATATATTTA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
17 9 0.41
18 13 0.59
ACGTcount: A:0.80, C:0.02, G:0.05, T:0.12
Consensus pattern (17 bp):
TAAAAAAAATAAAGAAA
Found at i:61183811 original size:7 final size:7
Alignment explanation
Indices: 61183799--61183844 Score: 51
Period size: 7 Copynumber: 6.4 Consensus size: 7
61183789 TTGATGAGTA
61183799 TTTTATT
1 TTTTATT
61183806 TTTTATTTT
1 TTTTA--TT
61183815 TTTTATT
1 TTTTATT
61183822 TTTT-TAT
1 TTTTAT-T
61183829 TTTTA-T
1 TTTTATT
61183835 TTTTATT
1 TTTTATT
61183842 TTT
1 TTT
61183845 ATTGGTATCT
Statistics
Matches: 34, Mismatches: 0, Indels: 10
0.77 0.00 0.23
Matches are distributed among these distances:
6 7 0.21
7 20 0.59
9 7 0.21
ACGTcount: A:0.13, C:0.00, G:0.00, T:0.87
Consensus pattern (7 bp):
TTTTATT
Found at i:61183814 original size:6 final size:6
Alignment explanation
Indices: 61183799--61183847 Score: 66
Period size: 6 Copynumber: 8.2 Consensus size: 6
61183789 TTGATGAGTA
61183799 TTTTATT TTTTAT TTTT-T TTATT-T TTTTAT TTTTAT TTTTAT TTTTAT
1 TTTTA-T TTTTAT TTTTAT TT-TTAT TTTTAT TTTTAT TTTTAT TTTTAT
61183847 T
1 T
61183848 GGTATCTTAA
Statistics
Matches: 40, Mismatches: 0, Indels: 5
0.89 0.00 0.11
Matches are distributed among these distances:
5 5 0.12
6 30 0.75
7 5 0.12
ACGTcount: A:0.14, C:0.00, G:0.00, T:0.86
Consensus pattern (6 bp):
TTTTAT
Found at i:61183823 original size:14 final size:15
Alignment explanation
Indices: 61183799--61183844 Score: 67
Period size: 14 Copynumber: 3.1 Consensus size: 15
61183789 TTGATGAGTA
61183799 TTTTATTTTTTATTTT
1 TTTTA-TTTTTATTTT
*
61183815 TTTTATTTTT-TTAT
1 TTTTATTTTTATTTT
61183829 TTTTATTTTTATTTT
1 TTTTATTTTTATTTT
61183844 T
1 T
61183845 ATTGGTATCT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
14 13 0.48
15 9 0.33
16 5 0.19
ACGTcount: A:0.13, C:0.00, G:0.00, T:0.87
Consensus pattern (15 bp):
TTTTATTTTTATTTT
Found at i:61184441 original size:71 final size:72
Alignment explanation
Indices: 61184360--61184502 Score: 270
Period size: 72 Copynumber: 2.0 Consensus size: 72
61184350 TGGGGACATT
61184360 TCTAGGATGAGCTTTACT-AAAAAAACGACATATGAAAAGCTTTTACCAAAATATCTAATGATTT
1 TCTAGGATGAGCTTTACTAAAAAAAACGACATATGAAAAGCTTTTACCAAAATATCTAATGATTT
61184424 ACCCATA
66 ACCCATA
*
61184431 TCTAGGATGAGCTTTACTAAAAAAAACGACATATGAAAAGCTTTTTCCAAAATATCTAATGATTT
1 TCTAGGATGAGCTTTACTAAAAAAAACGACATATGAAAAGCTTTTACCAAAATATCTAATGATTT
61184496 ACCCATA
66 ACCCATA
61184503 AAAATATTGA
Statistics
Matches: 70, Mismatches: 1, Indels: 1
0.97 0.01 0.01
Matches are distributed among these distances:
71 18 0.26
72 52 0.74
ACGTcount: A:0.42, C:0.17, G:0.11, T:0.30
Consensus pattern (72 bp):
TCTAGGATGAGCTTTACTAAAAAAAACGACATATGAAAAGCTTTTACCAAAATATCTAATGATTT
ACCCATA
Found at i:61188029 original size:18 final size:17
Alignment explanation
Indices: 61187992--61188030 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 17
61187982 AATAAAACGA
*
61187992 TTTTTTGAAAATGATAG
1 TTTTTTGAAAATAATAG
*
61188009 TTTTTCTGAAAATAATTG
1 TTTTT-TGAAAATAATAG
61188027 TTTT
1 TTTT
61188031 CAAGAAGACA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 5 0.26
18 14 0.74
ACGTcount: A:0.31, C:0.03, G:0.13, T:0.54
Consensus pattern (17 bp):
TTTTTTGAAAATAATAG
Found at i:61188979 original size:14 final size:14
Alignment explanation
Indices: 61188960--61188986 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
61188950 CATATTTACC
61188960 TTCGATCAATATTA
1 TTCGATCAATATTA
61188974 TTCGATCAATATT
1 TTCGATCAATATT
61188987 TTCTTTATCT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.33, C:0.15, G:0.07, T:0.44
Consensus pattern (14 bp):
TTCGATCAATATTA
Found at i:61190155 original size:13 final size:13
Alignment explanation
Indices: 61190137--61190163 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
61190127 GGCACATGCT
61190137 CGTGTGGCCAGCC
1 CGTGTGGCCAGCC
61190150 CGTGTGGCCAGCC
1 CGTGTGGCCAGCC
61190163 C
1 C
61190164 ATGGGGAATT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.07, C:0.41, G:0.37, T:0.15
Consensus pattern (13 bp):
CGTGTGGCCAGCC
Found at i:61192239 original size:19 final size:19
Alignment explanation
Indices: 61192195--61192239 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
61192185 TCCCTCTTTC
*
61192195 TTTCTTTTTCTTTATTCTA
1 TTTCTTTTTATTTATTCTA
*
61192214 TTTCTTTTTATTT-TTTTA
1 TTTCTTTTTATTTATTCTA
61192232 TTTACTTT
1 TTT-CTTT
61192240 AATTATTATA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
18 7 0.30
19 16 0.70
ACGTcount: A:0.11, C:0.11, G:0.00, T:0.78
Consensus pattern (19 bp):
TTTCTTTTTATTTATTCTA
Found at i:61192260 original size:16 final size:17
Alignment explanation
Indices: 61192239--61192281 Score: 61
Period size: 16 Copynumber: 2.6 Consensus size: 17
61192229 TTATTTACTT
61192239 TAATTATTATATTATA-
1 TAATTATTATATTATAG
* *
61192255 TTATTATTATATTTTAG
1 TAATTATTATATTATAG
61192272 TAATTATTAT
1 TAATTATTAT
61192282 TTACTTAAAT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
16 14 0.61
17 9 0.39
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.60
Consensus pattern (17 bp):
TAATTATTATATTATAG
Found at i:61192699 original size:49 final size:49
Alignment explanation
Indices: 61192642--61192771 Score: 172
Period size: 49 Copynumber: 2.7 Consensus size: 49
61192632 GTTATGTGTT
*
61192642 AGTGTAAGACCTATCTGGGACATGGCATCGACAC-CGATAGATGAGAGCC
1 AGTGTAAGACCTATCTGGGACATGGCATCGAC-CTCGATAGATGAAAGCC
* * * **
61192691 AGTGTAAGACCTGTCTGGGACATGGCATCGGCCTCGATATATGAAAGTT
1 AGTGTAAGACCTATCTGGGACATGGCATCGACCTCGATAGATGAAAGCC
* *
61192740 AGTGTAAGACCTATCTAGGACACGGCATCGAC
1 AGTGTAAGACCTATCTGGGACATGGCATCGAC
61192772 TTTAATGTGC
Statistics
Matches: 70, Mismatches: 10, Indels: 2
0.85 0.12 0.02
Matches are distributed among these distances:
48 1 0.01
49 69 0.99
ACGTcount: A:0.29, C:0.22, G:0.28, T:0.22
Consensus pattern (49 bp):
AGTGTAAGACCTATCTGGGACATGGCATCGACCTCGATAGATGAAAGCC
Found at i:61194003 original size:20 final size:21
Alignment explanation
Indices: 61193964--61194003 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
61193954 GTCATAATGG
*
61193964 CCATACAGGTATGTTGCCCTT
1 CCATACAGGCATGTTGCCCTT
*
61193985 CCATACGGGCATG-TGCCCT
1 CCATACAGGCATGTTGCCCT
61194004 ACTTCAAGTG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 6 0.35
21 11 0.65
ACGTcount: A:0.17, C:0.33, G:0.23, T:0.28
Consensus pattern (21 bp):
CCATACAGGCATGTTGCCCTT
Found at i:61198327 original size:20 final size:21
Alignment explanation
Indices: 61198302--61198341 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
61198292 CTCATGAAAT
61198302 AGGGC-ACACGCCCGTGTGGA
1 AGGGCAACACGCCCGTGTGGA
61198322 AGGGCAACACGCCCGTGTGG
1 AGGGCAACACGCCCGTGTGG
61198342 TCATTATAAC
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 5 0.26
21 14 0.74
ACGTcount: A:0.20, C:0.30, G:0.40, T:0.10
Consensus pattern (21 bp):
AGGGCAACACGCCCGTGTGGA
Found at i:61203175 original size:12 final size:12
Alignment explanation
Indices: 61203158--61203190 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
61203148 GATGCCACAC
61203158 GGCCGTGTGGCT-
1 GGCCGTGTGG-TA
61203170 GGCCGTGTGGTA
1 GGCCGTGTGGTA
61203182 GGCCGTGTG
1 GGCCGTGTG
61203191 CGACACACAG
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
11 1 0.05
12 19 0.95
ACGTcount: A:0.03, C:0.21, G:0.52, T:0.24
Consensus pattern (12 bp):
GGCCGTGTGGTA
Found at i:61206372 original size:14 final size:15
Alignment explanation
Indices: 61206355--61206384 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
61206345 ATTTTTGTTC
61206355 ATATA-TTTAAAACT
1 ATATATTTTAAAACT
61206369 ATATATTTTAAAACT
1 ATATATTTTAAAACT
61206384 A
1 A
61206385 GAGCAAGCTC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 5 0.33
15 10 0.67
ACGTcount: A:0.50, C:0.07, G:0.00, T:0.43
Consensus pattern (15 bp):
ATATATTTTAAAACT
Found at i:61206928 original size:27 final size:28
Alignment explanation
Indices: 61206889--61206943 Score: 76
Period size: 27 Copynumber: 2.0 Consensus size: 28
61206879 TAACCCAAAT
* * *
61206889 AATATACTCATTATTACTCAAA-CTCAA
1 AATAAACTAATTATAACTCAAATCTCAA
61206916 AATAAACTAATTATAACTCAAATCTCAA
1 AATAAACTAATTATAACTCAAATCTCAA
61206944 GTTCAAAATA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
27 19 0.79
28 5 0.21
ACGTcount: A:0.49, C:0.20, G:0.00, T:0.31
Consensus pattern (28 bp):
AATAAACTAATTATAACTCAAATCTCAA
Found at i:61207471 original size:14 final size:14
Alignment explanation
Indices: 61207452--61207495 Score: 63
Period size: 14 Copynumber: 3.1 Consensus size: 14
61207442 ATAATCTATA
61207452 ATATATTAA-TAGTT
1 ATATATTAATTA-TT
61207466 ATATATTAATTATT
1 ATATATTAATTATT
*
61207480 ATATATTATTTATT
1 ATATATTAATTATT
61207494 AT
1 AT
61207496 TGTACTAGTT
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
14 26 0.93
15 2 0.07
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.57
Consensus pattern (14 bp):
ATATATTAATTATT
Found at i:61207486 original size:7 final size:7
Alignment explanation
Indices: 61207425--61207495 Score: 56
Period size: 7 Copynumber: 10.0 Consensus size: 7
61207415 ATATCATGTA
61207425 ATATTAT
1 ATATTAT
*
61207432 ATATTTT
1 ATATTAT
*
61207439 ATTATAAT
1 A-TATTAT
* *
61207447 CTATAAT
1 ATATTAT
61207454 ATATTA-
1 ATATTAT
61207460 ATAGTTAT
1 ATA-TTAT
61207468 ATATTA-
1 ATATTAT
61207474 ATTATTAT
1 A-TATTAT
61207482 ATATTAT
1 ATATTAT
*
61207489 TTATTAT
1 ATATTAT
61207496 TGTACTAGTT
Statistics
Matches: 52, Mismatches: 7, Indels: 10
0.75 0.10 0.14
Matches are distributed among these distances:
6 4 0.08
7 40 0.77
8 8 0.15
ACGTcount: A:0.41, C:0.01, G:0.01, T:0.56
Consensus pattern (7 bp):
ATATTAT
Found at i:61207494 original size:35 final size:35
Alignment explanation
Indices: 61207411--61207494 Score: 89
Period size: 35 Copynumber: 2.3 Consensus size: 35
61207401 GATTAAACAT
* *
61207411 TATAATATCATGTAATATTATATATTTTATTATAATC
1 TATAATAT-AT-TAATATTATATATTTAATTATAATA
*
61207448 TATAATATATTAATAGTTATATA-TTAATTATTATA
1 TATAATATATTAATA-TTATATATTTAATTATAATA
* *
61207483 TATTATTTATTA
1 TATAATATATTA
61207495 TTGTACTAGT
Statistics
Matches: 41, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
35 24 0.59
36 9 0.22
37 8 0.20
ACGTcount: A:0.42, C:0.02, G:0.02, T:0.54
Consensus pattern (35 bp):
TATAATATATTAATATTATATATTTAATTATAATA
Found at i:61222537 original size:46 final size:45
Alignment explanation
Indices: 61222487--61222659 Score: 217
Period size: 46 Copynumber: 3.8 Consensus size: 45
61222477 TGGTTGAGCA
61222487 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
* * *
61222533 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGAAATGTAACTAG-GAA-
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACT--TATG-GA-T-GCGAAG
61222580 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
* *
61222626 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
61222660 GGGACGGGTT
Statistics
Matches: 110, Mismatches: 8, Indels: 18
0.81 0.06 0.13
Matches are distributed among these distances:
43 1 0.01
44 4 0.04
45 2 0.02
46 64 0.58
47 32 0.29
48 2 0.02
49 4 0.04
50 1 0.01
ACGTcount: A:0.23, C:0.21, G:0.28, T:0.29
Consensus pattern (45 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAG
Found at i:61222645 original size:93 final size:93
Alignment explanation
Indices: 61222486--61222654 Score: 311
Period size: 93 Copynumber: 1.8 Consensus size: 93
61222476 ATGGTTGAGC
* *
61222486 ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGTTG
1 ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGTTG
61222551 AGTCCGAGTTCGTGAAATGTAACTAGGA
66 AGTCCGAGTTCGTGAAATGTAACTAGGA
*
61222579 ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGTTG
1 ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGTTG
61222644 AGTCCGAGTTC
66 AGTCCGAGTTC
61222655 ACTTAGGGAC
Statistics
Matches: 73, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.22, C:0.21, G:0.28, T:0.28
Consensus pattern (93 bp):
ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGTTG
AGTCCGAGTTCGTGAAATGTAACTAGGA
Found at i:61228242 original size:12 final size:12
Alignment explanation
Indices: 61228225--61228258 Score: 54
Period size: 11 Copynumber: 3.0 Consensus size: 12
61228215 CTGACCTGCC
61228225 TATATTAATTTT
1 TATATTAATTTT
61228237 TATATT-ATTTT
1 TATATTAATTTT
61228248 TATA-TAATTTT
1 TATATTAATTTT
61228259 AAAATATATA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
10 1 0.05
11 14 0.67
12 6 0.29
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (12 bp):
TATATTAATTTT
Found at i:61228471 original size:11 final size:11
Alignment explanation
Indices: 61228453--61228492 Score: 62
Period size: 11 Copynumber: 3.6 Consensus size: 11
61228443 ACAATAACAA
61228453 CAAAATAATAG
1 CAAAATAATAG
*
61228464 CAACATAATAG
1 CAAAATAATAG
*
61228475 TAAAATAATAG
1 CAAAATAATAG
61228486 CAAAATA
1 CAAAATA
61228493 GGGAGAAAAC
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
11 25 1.00
ACGTcount: A:0.62, C:0.10, G:0.07, T:0.20
Consensus pattern (11 bp):
CAAAATAATAG
Found at i:61228471 original size:22 final size:22
Alignment explanation
Indices: 61228446--61228488 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
61228436 TATCCAAACA
61228446 ATAACAACAAAATAATAGCAAC
1 ATAACAACAAAATAATAGCAAC
* **
61228468 ATAATAGTAAAATAATAGCAA
1 ATAACAACAAAATAATAGCAA
61228489 AATAGGGAGA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.63, C:0.12, G:0.07, T:0.19
Consensus pattern (22 bp):
ATAACAACAAAATAATAGCAAC
Found at i:61229484 original size:11 final size:11
Alignment explanation
Indices: 61229468--61229493 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
61229458 TTATATATTT
61229468 AACCGATAAGC
1 AACCGATAAGC
61229479 AACCGATAAGC
1 AACCGATAAGC
61229490 AACC
1 AACC
61229494 TAAGCTCTCG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.46, C:0.31, G:0.15, T:0.08
Consensus pattern (11 bp):
AACCGATAAGC
Found at i:61231495 original size:16 final size:16
Alignment explanation
Indices: 61231461--61231494 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
61231451 CCACTTTTGG
*
61231461 TTTCACTAACCTAATT
1 TTTCACTAACCCAATT
61231477 TTTC-CTAACCCAATT
1 TTTCACTAACCCAATT
61231492 TTT
1 TTT
61231495 TGGATGTGAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 13 0.76
16 4 0.24
ACGTcount: A:0.26, C:0.26, G:0.00, T:0.47
Consensus pattern (16 bp):
TTTCACTAACCCAATT
Found at i:61236842 original size:17 final size:17
Alignment explanation
Indices: 61236820--61236855 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
61236810 AAGCCAAAGT
* *
61236820 AACTTTTATTCAGGAAC
1 AACTTTCATTCAAGAAC
61236837 AACTTTCATTCAAGAAC
1 AACTTTCATTCAAGAAC
61236854 AA
1 AA
61236856 TCATCGTCTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.42, C:0.19, G:0.08, T:0.31
Consensus pattern (17 bp):
AACTTTCATTCAAGAAC
Found at i:61249533 original size:21 final size:21
Alignment explanation
Indices: 61249507--61249585 Score: 56
Period size: 21 Copynumber: 3.9 Consensus size: 21
61249497 CTTTACAGCA
61249507 CATTATGGATAAACCACTCAT
1 CATTATGGATAAACCACTCAT
* **
61249528 CATTATGTATGTACCA--C-T
1 CATTATGGATAAACCACTCAT
* *
61249546 CGTTGTGGATAAACCACTCAT
1 CATTATGGATAAACCACTCAT
* * **
61249567 CCTTGTGGATGTACCACTC
1 CATTATGGATAAACCACTC
61249586 GTTGTGGATA
Statistics
Matches: 44, Mismatches: 11, Indels: 6
0.72 0.18 0.10
Matches are distributed among these distances:
18 12 0.27
19 1 0.02
20 1 0.02
21 30 0.68
ACGTcount: A:0.28, C:0.25, G:0.15, T:0.32
Consensus pattern (21 bp):
CATTATGGATAAACCACTCAT
Found at i:61249563 original size:18 final size:18
Alignment explanation
Indices: 61249540--61249602 Score: 72
Period size: 18 Copynumber: 3.3 Consensus size: 18
61249530 TTATGTATGT
61249540 ACCACTCGTTGTGGATAA
1 ACCACTCGTTGTGGATAA
* **
61249558 ACCACTCATCCTTGTGGATGT
1 ACCA--C-TCGTTGTGGATAA
61249579 ACCACTCGTTGTGGATAA
1 ACCACTCGTTGTGGATAA
61249597 ACCACT
1 ACCACT
61249603 AATAATAAAA
Statistics
Matches: 36, Mismatches: 6, Indels: 6
0.75 0.12 0.12
Matches are distributed among these distances:
18 20 0.56
19 1 0.03
20 1 0.03
21 14 0.39
ACGTcount: A:0.25, C:0.27, G:0.19, T:0.29
Consensus pattern (18 bp):
ACCACTCGTTGTGGATAA
Found at i:61249566 original size:39 final size:39
Alignment explanation
Indices: 61249512--61249602 Score: 155
Period size: 39 Copynumber: 2.3 Consensus size: 39
61249502 CAGCACATTA
*
61249512 TGGATAAACCACTCATCATTATGTATGTACCACTCGTTG
1 TGGATAAACCACTCATCATTATGGATGTACCACTCGTTG
* *
61249551 TGGATAAACCACTCATCCTTGTGGATGTACCACTCGTTG
1 TGGATAAACCACTCATCATTATGGATGTACCACTCGTTG
61249590 TGGATAAACCACT
1 TGGATAAACCACT
61249603 AATAATAAAA
Statistics
Matches: 49, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
39 49 1.00
ACGTcount: A:0.27, C:0.24, G:0.18, T:0.31
Consensus pattern (39 bp):
TGGATAAACCACTCATCATTATGGATGTACCACTCGTTG
Found at i:61250258 original size:43 final size:43
Alignment explanation
Indices: 61250186--61250270 Score: 111
Period size: 43 Copynumber: 2.0 Consensus size: 43
61250176 AGCTATTAAT
*
61250186 ACGGTGTGGATAAACCAATCAATGATGCAGATAA-ACTGCTCAA
1 ACGGTGTGGATAAACCAATCAAAGATGCAGATAATA-TGCTCAA
* *
61250229 ACGGTGTGGATAAGCCACTCAACAG-TGCAGATAATATGCTCA
1 ACGGTGTGGATAAACCAATCAA-AGATGCAGATAATATGCTCA
61250271 CACTTCCTTC
Statistics
Matches: 37, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
43 35 0.95
44 2 0.05
ACGTcount: A:0.36, C:0.20, G:0.22, T:0.21
Consensus pattern (43 bp):
ACGGTGTGGATAAACCAATCAAAGATGCAGATAATATGCTCAA
Found at i:61251786 original size:12 final size:12
Alignment explanation
Indices: 61251769--61251794 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
61251759 CATTCCGAAG
61251769 TATATATATACA
1 TATATATATACA
61251781 TATATATATACA
1 TATATATATACA
61251793 TA
1 TA
61251795 AGTATGCCAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.50, C:0.08, G:0.00, T:0.42
Consensus pattern (12 bp):
TATATATATACA
Found at i:61252300 original size:27 final size:27
Alignment explanation
Indices: 61252269--61252446 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
61252259 TAAATTGTAC
61252269 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
61252296 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
61252322 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
61252350 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
61252378 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
61252405 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
61252432 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
61252447 GACTCAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:61252383 original size:82 final size:81
Alignment explanation
Indices: 61252270--61252425 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
61252260 AAATTGTACA
* *
61252270 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
61252334 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
61252351 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
61252416 TGCGAGTTGA
65 TGCGAATTGA
61252426 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:61252437 original size:82 final size:81
Alignment explanation
Indices: 61252266--61252446 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
61252256 GATTAAATTG
* *
61252266 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
61252331 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
61252347 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
61252411 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
61252429 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
61252447 GACTCAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:61265579 original size:39 final size:40
Alignment explanation
Indices: 61265534--61265705 Score: 204
Period size: 40 Copynumber: 4.3 Consensus size: 40
61265524 GCTCCTCGTT
* * *
61265534 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
**
61265574 C-AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
* * *
61265613 CGAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
* * * *
61265653 CAAAGGCCTTCGGGGCTTAACCCGGAATTT-GTATCTCGCA
1 CAAATGCCTTCGGGACATAACCCGG-ATTTAGTAACTCGCA
*
61265693 CAAAAGCCTTCGG
1 CAAATGCCTTCGG
61265706 ATCTTAGTCC
Statistics
Matches: 117, Mismatches: 13, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
39 34 0.29
40 79 0.68
41 4 0.03
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
Found at i:61265718 original size:80 final size:79
Alignment explanation
Indices: 61265534--61265758 Score: 204
Period size: 80 Copynumber: 2.8 Consensus size: 79
61265524 GCTCCTCGTT
* * * * * * *
61265534 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACACAATGCCTTCGGGACATAACCCGG-
1 CAAAAGCCTTCGGGACTTAACCCGGATTTAGT-ACTCGCACAAAGCCTTCGGGACTTAACCCGGA
61265598 ATTTAACAACTCGCA
65 ATTTAACAACTCGCA
* * *
61265613 CGAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACAAAGGCCTTCGGGGCTTAACCCGG
1 CAAAAGCCTTCGGGACTTAACCCGGATTTAGTA-CTCGCACAAA-GCCTTCGGGACTTAACCCGG
** *
61265678 AATTT-GTATCTCGCA
64 AATTTAACAACTCGCA
** * * * *
61265693 CAAAAGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCACAAAGCCTTCGGGACTTAGCCCG
1 CAAAAGCCTTCGGGA-CTTAACCCGGATTTAGT-AC-TCGCACAAAGCCTTCGGGACTTAACCCG
61265757 GA
63 GA
61265759 CAGCATTCAA
Statistics
Matches: 120, Mismatches: 20, Indels: 11
0.79 0.13 0.07
Matches are distributed among these distances:
78 1 0.01
79 39 0.32
80 67 0.56
81 13 0.11
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.24
Consensus pattern (79 bp):
CAAAAGCCTTCGGGACTTAACCCGGATTTAGTACTCGCACAAAGCCTTCGGGACTTAACCCGGAA
TTTAACAACTCGCA
Found at i:61265767 original size:41 final size:41
Alignment explanation
Indices: 61265690--61265767 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
61265680 TTTGTATCTC
* * *
61265690 GCACAAAAGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAAAGCCTTCGGATCTTAGCCCGGACACATTCACTTA
61265731 GCAC-AAAGCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAAAGCCTTC-GGATCTTAGCCCGGACA-CATTCA
61265768 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 20 0.62
41 12 0.38
ACGTcount: A:0.28, C:0.28, G:0.21, T:0.23
Consensus pattern (41 bp):
GCACAAAAGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:61281388 original size:7 final size:7
Alignment explanation
Indices: 61281376--61281400 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
61281366 TTCTGCTTGA
61281376 AATTCTC
1 AATTCTC
61281383 AATTCTC
1 AATTCTC
61281390 AATTCTC
1 AATTCTC
61281397 AATT
1 AATT
61281401 TTGCTTCCAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.32, C:0.24, G:0.00, T:0.44
Consensus pattern (7 bp):
AATTCTC
Found at i:61284369 original size:6 final size:6
Alignment explanation
Indices: 61284358--61284529 Score: 129
Period size: 6 Copynumber: 27.8 Consensus size: 6
61284348 TATCATAACT
* * *
61284358 AGAATC AGAATC AGAATC AGAATC AG-GTGAC AGAATC AAAATC AGAACC
1 AGAATC AGAATC AGAATC AGAATC AGAAT--C AGAATC AGAATC AGAATC
* * * *
61284407 AGAATT AGAATT AGGTAA-C AGAATT AGAATC AGTATC AGGTAA-C AGAATC
1 AGAATC AGAATC A-G-AATC AGAATC AGAATC AGAATC A-G-AATC AGAATC
* * *
61284457 AGAATC AGAACC AGAATC AGAATT AGGTAA-C AGAATC AGAATC AGTATC
1 AGAATC AGAATC AGAATC AGAATC A-G-AATC AGAATC AGAATC AGAATC
61284506 AGGTAA-C AGAATC AGAATC AGAAT
1 A-G-AATC AGAATC AGAATC AGAAT
61284530 GTGAATGCAA
Statistics
Matches: 133, Mismatches: 18, Indels: 30
0.73 0.10 0.17
Matches are distributed among these distances:
5 9 0.07
6 104 0.78
7 13 0.10
8 7 0.05
ACGTcount: A:0.48, C:0.15, G:0.19, T:0.19
Consensus pattern (6 bp):
AGAATC
Found at i:61284370 original size:18 final size:18
Alignment explanation
Indices: 61284358--61284529 Score: 129
Period size: 19 Copynumber: 9.3 Consensus size: 18
61284348 TATCATAACT
61284358 AGAATCAGAATCAGAATC
1 AGAATCAGAATCAGAATC
*
61284376 AGAATCAG-GTGACAGAATC
1 AGAATCAGAAT--CAGAATC
* * *
61284395 AAAATCAGAACCAGAATT
1 AGAATCAGAATCAGAATC
* *
61284413 AGAATTAGGTAA-CAGAATT
1 AGAATCA-G-AATCAGAATC
*
61284432 AGAATCAGTATCAGGTAA-C
1 AGAATCAGAATCA-G-AATC
*
61284451 AGAATCAGAATCAGAACC
1 AGAATCAGAATCAGAATC
*
61284469 AGAATCAGAATTAGGTAA-C
1 AGAATCAGAATCA-G-AATC
*
61284488 AGAATCAGAATCAGTATC
1 AGAATCAGAATCAGAATC
61284506 AGGTAA-CAGAATCAGAATC
1 A-G-AATCAGAATCAGAATC
61284525 AGAAT
1 AGAAT
61284530 GTGAATGCAA
Statistics
Matches: 124, Mismatches: 15, Indels: 30
0.73 0.09 0.18
Matches are distributed among these distances:
17 7 0.06
18 40 0.32
19 69 0.56
20 8 0.06
ACGTcount: A:0.48, C:0.15, G:0.19, T:0.19
Consensus pattern (18 bp):
AGAATCAGAATCAGAATC
Found at i:61284402 original size:37 final size:37
Alignment explanation
Indices: 61284360--61284529 Score: 111
Period size: 37 Copynumber: 4.6 Consensus size: 37
61284350 TCATAACTAG
*
61284360 AATCAGAATCAGAATCAGAATCAGGTGACAGAATCAA
1 AATCAGAATCAGAATCAGAATCAGGTAACAGAATCAA
* * * * *
61284397 AATCAGAACCAGAATTAGAATTAGGTAACAGAATTAG
1 AATCAGAATCAGAATCAGAATCAGGTAACAGAATCAA
* * *
61284434 AATCAGTATCAGGTAA-CAGAATCA-G-AATCAGAACCAG
1 AATCAGAATCA-G-AATCAGAATCAGGTAA-CAGAATCAA
* * *
61284471 AATCAGAATTAGGTAA-CAGAATCA-G-AATCAGTATCAGGT
1 AATCAGAATCA-G-AATCAGAATCAGGTAA-CAGAATCA--A
61284510 AA-CAGAATCAGAATCAGAAT
1 AATCAGAATCAGAATCAGAAT
61284530 GTGAATGCAA
Statistics
Matches: 109, Mismatches: 18, Indels: 12
0.78 0.13 0.09
Matches are distributed among these distances:
36 4 0.04
37 87 0.80
38 14 0.13
39 4 0.04
ACGTcount: A:0.48, C:0.15, G:0.19, T:0.19
Consensus pattern (37 bp):
AATCAGAATCAGAATCAGAATCAGGTAACAGAATCAA
Found at i:61284436 original size:62 final size:62
Alignment explanation
Indices: 61284363--61284528 Score: 287
Period size: 62 Copynumber: 2.7 Consensus size: 62
61284353 TAACTAGAAT
* * * *
61284363 CAGAATCAGAATCAGAATCAGGTGACAGAATCAAAATCAGAACCAGAATTAGAATTAGGTAA
1 CAGAATCAGAATCAGTATCAGGTAACAGAATCAGAATCAGAACCAGAATCAGAATTAGGTAA
*
61284425 CAGAATTAGAATCAGTATCAGGTAACAGAATCAGAATCAGAACCAGAATCAGAATTAGGTAA
1 CAGAATCAGAATCAGTATCAGGTAACAGAATCAGAATCAGAACCAGAATCAGAATTAGGTAA
61284487 CAGAATCAGAATCAGTATCAGGTAACAGAATCAGAATCAGAA
1 CAGAATCAGAATCAGTATCAGGTAACAGAATCAGAATCAGAA
61284529 TGTGAATGCA
Statistics
Matches: 98, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
62 98 1.00
ACGTcount: A:0.48, C:0.15, G:0.19, T:0.18
Consensus pattern (62 bp):
CAGAATCAGAATCAGTATCAGGTAACAGAATCAGAATCAGAACCAGAATCAGAATTAGGTAA
Found at i:61284496 original size:25 final size:25
Alignment explanation
Indices: 61284363--61284529 Score: 125
Period size: 25 Copynumber: 6.7 Consensus size: 25
61284353 TAACTAGAAT
*
61284363 CAGAATCAGAATCAGAATCAGGTGA
1 CAGAATCAGAATCAGAATCAGGTAA
* *
61284388 CAGAATCAAAATCAGAACCA-G-AA
1 CAGAATCAGAATCAGAATCAGGTAA
* * *
61284411 TTAGAATTAGGTAA-CAGAATTA-G-AA
1 -CAGAATCA-G-AATCAGAATCAGGTAA
*
61284436 TCAGTATCAGGTAA-CAGAATCA-G-AA
1 -CAGAATCA-G-AATCAGAATCAGGTAA
* *
61284461 TCAGAACCAGAATCAGAATTAGGTAA
1 -CAGAATCAGAATCAGAATCAGGTAA
*
61284487 CAGAATCAGAATCAGTATCAGGTAA
1 CAGAATCAGAATCAGAATCAGGTAA
61284512 CAGAATCAGAATCAGAAT
1 CAGAATCAGAATCAGAAT
61284530 GTGAATGCAA
Statistics
Matches: 117, Mismatches: 19, Indels: 12
0.79 0.13 0.08
Matches are distributed among these distances:
23 3 0.03
24 15 0.13
25 95 0.81
26 4 0.03
ACGTcount: A:0.47, C:0.15, G:0.19, T:0.19
Consensus pattern (25 bp):
CAGAATCAGAATCAGAATCAGGTAA
Found at i:61284690 original size:27 final size:26
Alignment explanation
Indices: 61284648--61284699 Score: 77
Period size: 27 Copynumber: 2.0 Consensus size: 26
61284638 GCGAGGCTGC
*
61284648 CAGATATTGTGACGAAGTCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
*
61284674 CAGATATATGTGGCGAAGCCACCAGA
1 CAGATAT-TGTGACGAAGCCACCAGA
61284700 TTGCAGCGAG
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
26 7 0.30
27 16 0.70
ACGTcount: A:0.37, C:0.21, G:0.25, T:0.17
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:61284740 original size:67 final size:67
Alignment explanation
Indices: 61284632--61284785 Score: 299
Period size: 67 Copynumber: 2.3 Consensus size: 67
61284622 CACCACAGAA
*
61284632 ATTGCAGCGAGGCTGCCAGATATTGTGACGAAGTCACCAGAACAGATATATGTGGCGAAGCCACC
1 ATTGCAGCGAGGCTGCCAGATATTGTGACGAAGTCACCAGAACAGATATATGTGACGAAGCCACC
61284697 AG
66 AG
61284699 ATTGCAGCGAGGCTGCCAGATATTGTGACGAAGTCACCAGAACAGATATATGTGACGAAGCCACC
1 ATTGCAGCGAGGCTGCCAGATATTGTGACGAAGTCACCAGAACAGATATATGTGACGAAGCCACC
61284764 AG
66 AG
61284766 ATTGCAGCGAGGCTGCCAGA
1 ATTGCAGCGAGGCTGCCAGA
61284786 ACGCTTCCTC
Statistics
Matches: 86, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
67 86 1.00
ACGTcount: A:0.31, C:0.23, G:0.29, T:0.18
Consensus pattern (67 bp):
ATTGCAGCGAGGCTGCCAGATATTGTGACGAAGTCACCAGAACAGATATATGTGACGAAGCCACC
AG
Found at i:61284755 original size:27 final size:26
Alignment explanation
Indices: 61284715--61284766 Score: 86
Period size: 27 Copynumber: 2.0 Consensus size: 26
61284705 GCGAGGCTGC
*
61284715 CAGATATTGTGACGAAGTCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
61284741 CAGATATATGTGACGAAGCCACCAGA
1 CAGATAT-TGTGACGAAGCCACCAGA
61284767 TTGCAGCGAG
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
26 7 0.29
27 17 0.71
ACGTcount: A:0.38, C:0.21, G:0.23, T:0.17
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:61285333 original size:27 final size:27
Alignment explanation
Indices: 61285024--61285335 Score: 392
Period size: 27 Copynumber: 11.6 Consensus size: 27
61285014 TTACCCACAA
* * *
61285024 GGTATCTCGATAATTCCACCCTACAGG
1 GGTATTTCGGTAATTCTACCCTACAGG
**
61285051 GGTATTTTAGTAATTCTACCCTACAGG
1 GGTATTTCGGTAATTCTACCCTACAGG
* *
61285078 GGTATTTCGGTAATTCTACCATATAGG
1 GGTATTTCGGTAATTCTACCCTACAGG
* *
61285105 GGTATTACGATAATTCTACCCTACAGG
1 GGTATTTCGGTAATTCTACCCTACAGG
61285132 GGTATTTCGGTAATTCTACCCTACAGG
1 GGTATTTCGGTAATTCTACCCTACAGG
*
61285159 GGTATTTCAGTAATTCTACCCTACAGG
1 GGTATTTCGGTAATTCTACCCTACAGG
*
61285186 GGTATTTCGGTAATTCTACCTTACAGG
1 GGTATTTCGGTAATTCTACCCTACAGG
*
61285213 GGTATTTCGGTAATTCTACCTTACAGG
1 GGTATTTCGGTAATTCTACCCTACAGG
* * *
61285240 GGTATTTCAGTAATTCTACCCTATAAG
1 GGTATTTCGGTAATTCTACCCTACAGG
* * **
61285267 GGTATTTTGGTAATTTTA-CAAACTAGG
1 GGTATTTCGGTAATTCTACCCTAC-AGG
* * * *
61285294 GGTGTTTTGGTAATTCTACCCTATAAG
1 GGTATTTCGGTAATTCTACCCTACAGG
*
61285321 GGTATTTCAGTAATT
1 GGTATTTCGGTAATT
61285336 TCACAATCGA
Statistics
Matches: 245, Mismatches: 38, Indels: 4
0.85 0.13 0.01
Matches are distributed among these distances:
26 2 0.01
27 241 0.98
28 2 0.01
ACGTcount: A:0.26, C:0.18, G:0.20, T:0.36
Consensus pattern (27 bp):
GGTATTTCGGTAATTCTACCCTACAGG
Found at i:61285441 original size:27 final size:27
Alignment explanation
Indices: 61285340--61285757 Score: 329
Period size: 27 Copynumber: 15.4 Consensus size: 27
61285330 GTAATTTCAC
* *
61285340 AATCGAGGGTAAAA-CGATAATTTTGTA
1 AATCGAGGGTAAAATAG-TAATTTTATA
* * *
61285367 AATCAAGGGTAAAATAGTAATTCTGTA
1 AATCGAGGGTAAAATAGTAATTTTATA
* * *
61285394 AATCGAGGGTAAAACAATAATTCTATA
1 AATCGAGGGTAAAATAGTAATTTTATA
*** *
61285421 AATCGAGGGTACTTTGGTAATTTT-TA
1 AATCGAGGGTAAAATAGTAATTTTATA
* *** *
61285447 CTAGTCGAGGGTATTTTAGTAATTTTACA
1 --AATCGAGGGTAAAATAGTAATTTTATA
* *** *
61285476 AATCAAGGGGTATTTTAGTAATTTTACA
1 AATCGA-GGGTAAAATAGTAATTTTATA
* *** * * *
61285504 AA-CCAGGGGTATTTTTGTAGTTTTCTA
1 AATCGA-GGGTAAAATAGTAATTTTATA
* * *
61285531 AATCGAGGGTAAAATGGTAATTCTCTA
1 AATCGAGGGTAAAATAGTAATTTTATA
* *
61285558 AATCGAGGGTAAAATGGTAATTCTATA
1 AATCGAGGGTAAAATAGTAATTTTATA
* ** *
61285585 AATCGAGGGTAGAACGGTAATTTTGTA
1 AATCGAGGGTAAAATAGTAATTTTATA
*
61285612 AATCGAGGGTAAAATAGTAATTTTGTA
1 AATCGAGGGTAAAATAGTAATTTTATA
* * * * * *
61285639 ATTCAATGGTAAAATAGTAACTCTGTA
1 AATCGAGGGTAAAATAGTAATTTTATA
61285666 AATCGAGGGTAAAATAGTAATTTTATA
1 AATCGAGGGTAAAATAGTAATTTTATA
* *
61285693 AATCGAGGGTAAAACAGTAATTCTATA
1 AATCGAGGGTAAAATAGTAATTTTATA
* *
61285720 AATCGAGGGTAAAATGGTAATTTTGTA
1 AATCGAGGGTAAAATAGTAATTTTATA
61285747 AATCGAGGGTA
1 AATCGAGGGTA
61285758 CTTTGATAAT
Statistics
Matches: 328, Mismatches: 57, Indels: 12
0.83 0.14 0.03
Matches are distributed among these distances:
26 2 0.01
27 278 0.85
28 47 0.14
29 1 0.00
ACGTcount: A:0.38, C:0.08, G:0.21, T:0.33
Consensus pattern (27 bp):
AATCGAGGGTAAAATAGTAATTTTATA
Found at i:61285486 original size:28 final size:27
Alignment explanation
Indices: 61285455--61285527 Score: 110
Period size: 28 Copynumber: 2.7 Consensus size: 27
61285445 TACTAGTCGA
61285455 GGGTATTTTAGTAATTTTACAAATCAAG
1 GGGTATTTTAGTAATTTTACAAA-CAAG
*
61285483 GGGTATTTTAGTAATTTTACAAACCAG
1 GGGTATTTTAGTAATTTTACAAACAAG
* *
61285510 GGGTATTTTTGTAGTTTT
1 GGGTATTTTAGTAATTTT
61285528 CTAAATCGAG
Statistics
Matches: 42, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
27 19 0.45
28 23 0.55
ACGTcount: A:0.29, C:0.07, G:0.21, T:0.44
Consensus pattern (27 bp):
GGGTATTTTAGTAATTTTACAAACAAG
Found at i:61285614 original size:81 final size:81
Alignment explanation
Indices: 61285340--61285757 Score: 365
Period size: 81 Copynumber: 5.1 Consensus size: 81
61285330 GTAATTTCAC
* * * *
61285340 AATCGAGGGTAAAACGATAATTTTGTAAATCAAGGGTAAAATAGTAATTCTGTAAATCGAGGGTA
1 AATCGAGGGTAAAATGGTAATTTTGTAAATCGAGGGTAAAATAGTAATTCTCTAAATCGAGGGTA
* *
61285405 AAACAATAATTCTATA
66 AAATAGTAATTCTATA
*** * *** * *
61285421 AATCGAGGGTACTTTGGTAATTTT-TACTAGTCGAGGGTATTTTAGTAATTTTAC-AAATCAAGG
1 AATCGAGGGTAAAATGGTAATTTTGTA--AATCGAGGGTAAAATAGTAATTCT-CTAAATCGA-G
*** * *
61285484 GGTATTTTAGTAATTTTACA
62 GGTAAAATAGTAATTCTATA
* *** * * * *
61285504 AA-CCAGGGGTATTTTTGTAGTTTTCTAAATCGAGGGTAAAATGGTAATTCTCTAAATCGAGGGT
1 AATCGA-GGGTAAAATGGTAATTTTGTAAATCGAGGGTAAAATAGTAATTCTCTAAATCGAGGGT
*
61285568 AAAATGGTAATTCTATA
65 AAAATAGTAATTCTATA
* * * * * * *
61285585 AATCGAGGGTAGAACGGTAATTTTGTAAATCGAGGGTAAAATAGTAATTTTGTAATTCAATGGTA
1 AATCGAGGGTAAAATGGTAATTTTGTAAATCGAGGGTAAAATAGTAATTCTCTAAATCGAGGGTA
* *
61285650 AAATAGTAACTCTGTA
66 AAATAGTAATTCTATA
* * * *
61285666 AATCGAGGGTAAAATAGTAATTTTATAAATCGAGGGTAAAACAGTAATTCTATAAATCGAGGGTA
1 AATCGAGGGTAAAATGGTAATTTTGTAAATCGAGGGTAAAATAGTAATTCTCTAAATCGAGGGTA
* * *
61285731 AAATGGTAATTTTGTA
66 AAATAGTAATTCTATA
61285747 AATCGAGGGTA
1 AATCGAGGGTA
61285758 CTTTGATAAT
Statistics
Matches: 262, Mismatches: 67, Indels: 16
0.76 0.19 0.05
Matches are distributed among these distances:
80 2 0.01
81 175 0.67
82 52 0.20
83 31 0.12
84 2 0.01
ACGTcount: A:0.38, C:0.08, G:0.21, T:0.33
Consensus pattern (81 bp):
AATCGAGGGTAAAATGGTAATTTTGTAAATCGAGGGTAAAATAGTAATTCTCTAAATCGAGGGTA
AAATAGTAATTCTATA
Found at i:61290074 original size:27 final size:28
Alignment explanation
Indices: 61290037--61290149 Score: 153
Period size: 27 Copynumber: 4.2 Consensus size: 28
61290027 AGCATGGCTG
** *
61290037 CCAGA-ACAGATA-TTGTGATAGAGTCA
1 CCAGATACAGATATTTGTGGCAGAGCCA
61290063 CCAGATACAGATA-TTGTGGCAGAGCCA
1 CCAGATACAGATATTTGTGGCAGAGCCA
* *
61290090 CCAAAAACAGATATTTGTGGCAGAGCCA
1 CCAGATACAGATATTTGTGGCAGAGCCA
61290118 CCAGAT-CAGATATTTGTGGCAGAGCCA
1 CCAGATACAGATATTTGTGGCAGAGCCA
61290145 CCAGA
1 CCAGA
61290150 ATGCTTCCTC
Statistics
Matches: 78, Mismatches: 7, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
26 5 0.06
27 55 0.71
28 18 0.23
ACGTcount: A:0.35, C:0.21, G:0.24, T:0.19
Consensus pattern (28 bp):
CCAGATACAGATATTTGTGGCAGAGCCA
Found at i:61290128 original size:54 final size:55
Alignment explanation
Indices: 61290041--61290147 Score: 164
Period size: 55 Copynumber: 2.0 Consensus size: 55
61290031 TGGCTGCCAG
* *
61290041 AACAGATATTGTGATAGAGTCACCAGATACAGATA-TTGTGGCAGAGCCACCAAA
1 AACAGATATTGTGACAGAGCCACCAGATACAGATATTTGTGGCAGAGCCACCAAA
*
61290095 AACAGATATTTGTGGCAGAGCCACCAGAT-CAGATATTTGTGGCAGAGCCACCA
1 AACAGATA-TTGTGACAGAGCCACCAGATACAGATATTTGTGGCAGAGCCACCA
61290148 GAATGCTTCC
Statistics
Matches: 48, Mismatches: 3, Indels: 3
0.89 0.06 0.06
Matches are distributed among these distances:
54 14 0.29
55 34 0.71
ACGTcount: A:0.36, C:0.21, G:0.23, T:0.21
Consensus pattern (55 bp):
AACAGATATTGTGACAGAGCCACCAGATACAGATATTTGTGGCAGAGCCACCAAA
Found at i:61297931 original size:28 final size:27
Alignment explanation
Indices: 61297852--61297935 Score: 123
Period size: 27 Copynumber: 3.1 Consensus size: 27
61297842 ATGGCTGCCA
* *
61297852 AAACAGATATTGTGACAGAGTCACCAG
1 AAACAGATATTGTGGCAGAGCCACCAG
* *
61297879 ATACAGATATTATGGCAGAGCCACCAG
1 AAACAGATATTGTGGCAGAGCCACCAG
61297906 AAACAGATATTTGTGGCAGAGCCACCAG
1 AAACAGATA-TTGTGGCAGAGCCACCAG
61297934 AA
1 AA
61297936 CGCTTCCTCC
Statistics
Matches: 50, Mismatches: 6, Indels: 1
0.88 0.11 0.02
Matches are distributed among these distances:
27 31 0.62
28 19 0.38
ACGTcount: A:0.39, C:0.20, G:0.23, T:0.18
Consensus pattern (27 bp):
AAACAGATATTGTGGCAGAGCCACCAG
Found at i:61306040 original size:37 final size:37
Alignment explanation
Indices: 61305990--61306068 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
61305980 TTATTACGAA
* * *
61305990 GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
*
61306027 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
61306064 GTCTT
1 GTCTT
61306069 TAGAGCTCGA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.25, C:0.32, G:0.19, T:0.24
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
Found at i:61306264 original size:47 final size:47
Alignment explanation
Indices: 61306186--61306622 Score: 640
Period size: 47 Copynumber: 9.2 Consensus size: 47
61306176 CCCTTCGGGA
* * * * * **
61306186 CTTATCACATTTATGCACTTTCACATCCATCACATTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAAGC
* *
61306233 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAAGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAAGC
**
61306280 CTTATCACGCATATACACTTTCACATTCATCACATCGGCCATTAAGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAAGC
* *
61306327 CTTATCACATATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAAGC
* *
61306376 CTTATCGCACATATACACTTTCACATTCATCACATCGGCCATTAAGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAAGC
* *
61306423 CTTATCACATATATATACACTTTCACATTCCTCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAAGC
*
61306472 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAAGC
*
61306519 CCTATTCACATATATACACTTTCACATTCATCACATCGGCCATTAAGC
1 CTTA-TCACATATATACACTTTCACATTCATCACATCGGCCATTAAGC
* *
61306567 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAAGC
61306614 CTTATCACA
1 CTTATCACA
61306623 ATTTAGAATT
Statistics
Matches: 354, Mismatches: 31, Indels: 10
0.90 0.08 0.03
Matches are distributed among these distances:
47 223 0.63
48 45 0.13
49 86 0.24
ACGTcount: A:0.29, C:0.31, G:0.08, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAAGC
Found at i:61306381 original size:96 final size:95
Alignment explanation
Indices: 61306186--61306624 Score: 648
Period size: 96 Copynumber: 4.6 Consensus size: 95
61306176 CCCTTCGGGA
** * * * * * * *
61306186 CTTATCACATTTATGCACTTTCACATCCATCACATTGGCCACTCGGCCCTGTCAC-ATATATACA
1 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACAATATATACA
61306250 CTTTCACATTCATCACATCGGCCATTAAGC
66 CTTTCACATTCATCACATCGGCCATTAAGC
* *
61306280 CTTATCACGCATATACACTTTCACATTCATCACATCGGCCATTAAGCCTTATCACATATATATAC
1 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACA-ATATATAC
* *
61306345 ACTTTCACATTCATCACATCGGCTATTAGGC
65 ACTTTCACATTCATCACATCGGCCATTAAGC
* *
61306376 CTTATCGCACATATACACTTTCACATTCATCACATCGGCCATTAAGCCTTATCACATATATATAC
1 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACA-ATATATAC
* *
61306441 ACTTTCACATTCCTCACATCGGCCATTAGGC
65 ACTTTCACATTCATCACATCGGCCATTAAGC
* *
61306472 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCCTATTCAC-ATATATAC
1 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTA-TCACAATATATAC
61306536 ACTTTCACATTCATCACATCGGCCATTAAGC
65 ACTTTCACATTCATCACATCGGCCATTAAGC
* *
61306567 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGCCTTATCACAAT
1 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACAAT
61306625 TTAGAATTCA
Statistics
Matches: 316, Mismatches: 25, Indels: 7
0.91 0.07 0.02
Matches are distributed among these distances:
94 48 0.15
95 88 0.28
96 176 0.56
97 4 0.01
ACGTcount: A:0.29, C:0.31, G:0.08, T:0.32
Consensus pattern (95 bp):
CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACAATATATACA
CTTTCACATTCATCACATCGGCCATTAAGC
Found at i:61306402 original size:143 final size:143
Alignment explanation
Indices: 61306186--61306622 Score: 684
Period size: 143 Copynumber: 3.1 Consensus size: 143
61306176 CCCTTCGGGA
* * * * * *
61306186 CTTATCACAT-T-TATGCACTTTCACATCCATCACATTGGCCACTCGGCCCTGTCACATATATAC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCCTATCACATATATAC
**
61306249 ACTTTCACATTCATCACATCGGCCATTAAGCCTTATCACGCATATACACTTTCACATTCATCACA
66 ACTTTCACATTCATCACATCGGCCATTAAGCCTTATCACATATATACACTTTCACATTCATCACA
*
61306314 TCGGCCATTAAGC
131 TCGGCCATTAGGC
* * * *
61306327 CTTATCACATATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCGCACATATAC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCCTATCACATATATAC
*
61306392 ACTTTCACATTCATCACATCGGCCATTAAGCCTTATCACATATATATACACTTTCACATTCCTCA
66 ACTTTCACATTCATCACATCGGCCATTAAGCCTTATCAC--ATATATACACTTTCACATTCATCA
61306457 CATCGGCCATTAGGC
129 CATCGGCCATTAGGC
61306472 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCCTATTCACATATATA
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCCTA-TCACATATATA
61306535 CACTTTCACATTCATCACATCGGCCATTAAGCCTTATCACATATATACACTTTCACATTCATCAC
65 CACTTTCACATTCATCACATCGGCCATTAAGCCTTATCACATATATACACTTTCACATTCATCAC
*
61306600 ATTGGCCATTAGGC
130 ATCGGCCATTAGGC
61306614 CTTATCACA
1 CTTATCACA
61306623 ATTTAGAATT
Statistics
Matches: 270, Mismatches: 20, Indels: 10
0.90 0.07 0.03
Matches are distributed among these distances:
141 10 0.04
142 46 0.17
143 122 0.45
144 49 0.18
145 43 0.16
ACGTcount: A:0.29, C:0.31, G:0.08, T:0.32
Consensus pattern (143 bp):
CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCCTATCACATATATAC
ACTTTCACATTCATCACATCGGCCATTAAGCCTTATCACATATATACACTTTCACATTCATCACA
TCGGCCATTAGGC
Found at i:61315024 original size:24 final size:23
Alignment explanation
Indices: 61314983--61315054 Score: 72
Period size: 25 Copynumber: 3.0 Consensus size: 23
61314973 GCTTTATCAT
**
61314983 ATAACTGGAGGCCTAGCCTCTTTTA
1 ATAACT-GAGGCAAAGCC-CTTTTA
*
61315008 ATAACTGAGGCAAAGCCCTTTTTG
1 ATAACTGAGGCAAAGCCC-TTTTA
*
61315032 ATAAACTGGGGCAAAGCCCTTTT
1 AT-AACTGAGGCAAAGCCCTTTT
61315055 CGGTAAACTG
Statistics
Matches: 41, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
23 1 0.02
24 19 0.46
25 21 0.51
ACGTcount: A:0.28, C:0.22, G:0.21, T:0.29
Consensus pattern (23 bp):
ATAACTGAGGCAAAGCCCTTTTA
Found at i:61315038 original size:25 final size:25
Alignment explanation
Indices: 61315010--61315079 Score: 104
Period size: 25 Copynumber: 2.8 Consensus size: 25
61315000 CTCTTTTAAT
* *
61315010 AACTGAGGCAAAGCCCTTTTTGATA
1 AACTGGGGCAAAGCCCTTTTCGATA
*
61315035 AACTGGGGCAAAGCCCTTTTCGGTA
1 AACTGGGGCAAAGCCCTTTTCGATA
*
61315060 AACTGGGGCATAGCCCTTTT
1 AACTGGGGCAAAGCCCTTTT
61315080 ATCACTTCCT
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 41 1.00
ACGTcount: A:0.26, C:0.23, G:0.24, T:0.27
Consensus pattern (25 bp):
AACTGGGGCAAAGCCCTTTTCGATA
Found at i:61330071 original size:7 final size:8
Alignment explanation
Indices: 61330056--61330088 Score: 66
Period size: 8 Copynumber: 4.1 Consensus size: 8
61330046 ATTGATGTGC
61330056 TATTTTTT
1 TATTTTTT
61330064 TATTTTTT
1 TATTTTTT
61330072 TATTTTTT
1 TATTTTTT
61330080 TATTTTTT
1 TATTTTTT
61330088 T
1 T
61330089 TGTATTATGT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 25 1.00
ACGTcount: A:0.12, C:0.00, G:0.00, T:0.88
Consensus pattern (8 bp):
TATTTTTT
Found at i:61337817 original size:23 final size:25
Alignment explanation
Indices: 61337790--61337857 Score: 86
Period size: 23 Copynumber: 2.7 Consensus size: 25
61337780 AATGAAAAGG
*
61337790 GCACTATGTGTGCGAATGG-GGC-A
1 GCACTATGTGTGCGAATGGAAGCTA
*
61337813 GCACTATGTGTGCGTATGGAAAAGCTA
1 GCACTATGTGTGCGAATGG--AAGCTA
61337840 GCACTATGTGTGCGAATG
1 GCACTATGTGTGCGAATG
61337858 AATATATGTA
Statistics
Matches: 38, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
23 18 0.47
26 2 0.05
27 18 0.47
ACGTcount: A:0.25, C:0.16, G:0.34, T:0.25
Consensus pattern (25 bp):
GCACTATGTGTGCGAATGGAAGCTA
Found at i:61338476 original size:20 final size:20
Alignment explanation
Indices: 61338451--61338491 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
61338441 TGATCTTATA
61338451 ATGTTAAAATCTTGTTAACT
1 ATGTTAAAATCTTGTTAACT
61338471 ATGTTAAAATCTTGTTAACT
1 ATGTTAAAATCTTGTTAACT
61338491 A
1 A
61338492 GCATGCGTAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.37, C:0.10, G:0.10, T:0.44
Consensus pattern (20 bp):
ATGTTAAAATCTTGTTAACT
Found at i:61341197 original size:42 final size:43
Alignment explanation
Indices: 61341121--61341221 Score: 132
Period size: 42 Copynumber: 2.4 Consensus size: 43
61341111 GCTGGTGAAT
* *
61341121 AATATTATCGGGCTTCGGGCCTAACAGGCTATAATGCTAGTGA
1 AATAATATCGGGCTTCGGGCCTAACAGGCTATAATGCCAGTGA
* * * *
61341164 GATAATATCGGGCTTTGGGGCT-AGAGGCTATAATGCCAGTGA
1 AATAATATCGGGCTTCGGGCCTAACAGGCTATAATGCCAGTGA
*
61341206 AATGATATCGGGCTTC
1 AATAATATCGGGCTTC
61341222 AAGCCTAGCA
Statistics
Matches: 49, Mismatches: 9, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
42 31 0.63
43 18 0.37
ACGTcount: A:0.27, C:0.17, G:0.29, T:0.28
Consensus pattern (43 bp):
AATAATATCGGGCTTCGGGCCTAACAGGCTATAATGCCAGTGA
Found at i:61343272 original size:16 final size:17
Alignment explanation
Indices: 61343251--61343289 Score: 62
Period size: 16 Copynumber: 2.4 Consensus size: 17
61343241 CTTGTAACGC
61343251 CCCAAAAATCCC-AAAA
1 CCCAAAAATCCCGAAAA
*
61343267 CCCAAAAATCCCGAAAT
1 CCCAAAAATCCCGAAAA
61343284 CCCAAA
1 CCCAAA
61343290 CTTTCTTTGT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
16 12 0.57
17 9 0.43
ACGTcount: A:0.51, C:0.38, G:0.03, T:0.08
Consensus pattern (17 bp):
CCCAAAAATCCCGAAAA
Found at i:61346065 original size:80 final size:80
Alignment explanation
Indices: 61345932--61346188 Score: 387
Period size: 80 Copynumber: 3.2 Consensus size: 80
61345922 CGGATGATAA
* *
61345932 CGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAATTCCGGGCTAAGTCCCGAAGGCATTTGT
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATTCCGGGCTAAGTCCCGAAGGCATTTGT
61345997 GCGAGTTACTA-ATT
66 GCGAGTTACTATATT
61346011 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATTCCGGGCTAAGTCCCGAAGGCATTTG
1 -CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATTCCGGGCTAAGTCCCGAAGGCATTTG
61346076 TGCGAGTTACTATATT
65 TGCGAGTTACTATATT
**
61346092 CGGGCTAAGTCCCGAAGGCATTTGTGCGAACTACT-ATATCCGGGCTAAGTCCCGAAGGCATTTG
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT-TCCGGGCTAAGTCCCGAAGGCATTTG
*
61346156 AGCGAG-TAGCTATA-T
65 TGCGAGTTA-CTATATT
* * *
61346171 CCGGTTAAATCCCGAAGG
1 CGGGCTAAGTCCCGAAGG
61346189 TACTTGGTTT
Statistics
Matches: 166, Mismatches: 8, Indels: 7
0.92 0.04 0.04
Matches are distributed among these distances:
79 20 0.12
80 143 0.86
81 3 0.02
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.26
Consensus pattern (80 bp):
CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATTCCGGGCTAAGTCCCGAAGGCATTTGT
GCGAGTTACTATATT
Found at i:61346174 original size:40 final size:40
Alignment explanation
Indices: 61345932--61346162 Score: 385
Period size: 40 Copynumber: 5.8 Consensus size: 40
61345922 CGGATGATAA
* *
61345932 CGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAATTC
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATTC
61345972 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATTC
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATTC
61346012 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATTC
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATTC
61346052 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATT-
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-ATTC
**
61346092 CGGGCTAAGTCCCGAAGGCATTTGTGCGAACTACT-ATATC
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT-TC
*
61346132 CGGGCTAAGTCCCGAAGGCATTTGAGCGAGT
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGT
61346163 AGCTATATCC
Statistics
Matches: 181, Mismatches: 7, Indels: 6
0.93 0.04 0.03
Matches are distributed among these distances:
38 2 0.01
39 1 0.01
40 175 0.97
41 3 0.02
ACGTcount: A:0.23, C:0.23, G:0.28, T:0.26
Consensus pattern (40 bp):
CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATTC
Found at i:61352306 original size:39 final size:40
Alignment explanation
Indices: 61352261--61352432 Score: 222
Period size: 40 Copynumber: 4.3 Consensus size: 40
61352251 GCTCCTCGTT
* * *
61352261 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
*
61352301 C-AATGCCTTCGGGACATAACCCGGATTTAATAACTCGCA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
* * *
61352340 CGAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
* * * *
61352380 CAAAGGCCTTCGGGGCTTAACCCGGAATTT-GTATCTCGCA
1 CAAATGCCTTCGGGACATAACCCGG-ATTTAGTAACTCGCA
61352420 CAAATGCCTTCGG
1 CAAATGCCTTCGG
61352433 ATCTTAGTCC
Statistics
Matches: 119, Mismatches: 11, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
39 35 0.29
40 80 0.67
41 4 0.03
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
Found at i:61352361 original size:40 final size:39
Alignment explanation
Indices: 61352263--61352485 Score: 216
Period size: 40 Copynumber: 5.6 Consensus size: 39
61352253 TCCTCGTTCA
* * * *
61352263 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
* *
61352302 AATGCCTTCGGGACATAACCCGGATTTAATAACTCGCAC
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
*
61352341 GAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCAC
1 -AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
* * *
61352381 AAAGGCCTTCGGGGCTTAACCCGGAATTT-GTATCTCGCAC
1 -AATGCCTTCGGGACTTAACCCGG-ATTTAGTAACTCGCAC
** * * * *
61352421 AAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCAC
1 -AATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCAC
* *
61352462 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
61352486 CAGCATTCAA
Statistics
Matches: 157, Mismatches: 21, Indels: 11
0.83 0.11 0.06
Matches are distributed among these distances:
39 40 0.25
40 105 0.67
41 12 0.08
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.26
Consensus pattern (39 bp):
AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
Found at i:61352445 original size:80 final size:79
Alignment explanation
Indices: 61352261--61352485 Score: 240
Period size: 80 Copynumber: 2.8 Consensus size: 79
61352251 GCTCCTCGTT
* * * * *
61352261 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACACAATGCCTTCGGGACATAACCCGG-
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGT-ACTCGCACAAAGCCTTCGGGACTTAACCCGGA
61352325 ATTTAATAACTCGCA
65 ATTTAATAACTCGCA
* * *
61352340 CGAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACAAAGGCCTTCGGGGCTTAACCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTA-CTCGCACAAA-GCCTTCGGGACTTAACCCGG
* *
61352405 AATTT-GTATCTCGCA
64 AATTTAATAACTCGCA
* * * * *
61352420 CAAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCACAAAGCCTTCGGGACTTAGCCCG
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGT-AC-TCGCACAAAGCCTTCGGGACTTAACCCG
61352484 GA
63 GA
61352486 CAGCATTCAA
Statistics
Matches: 122, Mismatches: 18, Indels: 11
0.81 0.12 0.07
Matches are distributed among these distances:
78 1 0.01
79 39 0.32
80 69 0.57
81 13 0.11
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (79 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTACTCGCACAAAGCCTTCGGGACTTAACCCGGAA
TTTAATAACTCGCA
Found at i:61352494 original size:41 final size:41
Alignment explanation
Indices: 61352417--61352494 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
61352407 TTTGTATCTC
* * *
61352417 GCACAAATGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
61352458 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAATGCCTTC-GGATCTTAGCCCGGACA-CATTCA
61352495 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (41 bp):
GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:61360232 original size:39 final size:40
Alignment explanation
Indices: 61360187--61360358 Score: 222
Period size: 40 Copynumber: 4.3 Consensus size: 40
61360177 GCTCCTCGTT
* * *
61360187 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
*
61360227 C-AATGCCTTCGGGACATAACCCGGATTTAATAACTCGCA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
* * *
61360266 CGAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
* * * *
61360306 CAAAGGCCTTCGGGGCTTAACCCGGAATTT-GTATCTCGCA
1 CAAATGCCTTCGGGACATAACCCGG-ATTTAGTAACTCGCA
61360346 CAAATGCCTTCGG
1 CAAATGCCTTCGG
61360359 ATCTTAGTCC
Statistics
Matches: 119, Mismatches: 11, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
39 35 0.29
40 80 0.67
41 4 0.03
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
Found at i:61360287 original size:40 final size:39
Alignment explanation
Indices: 61360189--61360411 Score: 216
Period size: 40 Copynumber: 5.6 Consensus size: 39
61360179 TCCTCGTTCA
* * * *
61360189 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
* *
61360228 AATGCCTTCGGGACATAACCCGGATTTAATAACTCGCAC
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
*
61360267 GAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCAC
1 -AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
* * *
61360307 AAAGGCCTTCGGGGCTTAACCCGGAATTT-GTATCTCGCAC
1 -AATGCCTTCGGGACTTAACCCGG-ATTTAGTAACTCGCAC
** * * * *
61360347 AAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCAC
1 -AATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCAC
* *
61360388 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
61360412 CAGCATTCAA
Statistics
Matches: 157, Mismatches: 21, Indels: 11
0.83 0.11 0.06
Matches are distributed among these distances:
39 40 0.25
40 105 0.67
41 12 0.08
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.26
Consensus pattern (39 bp):
AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
Found at i:61360371 original size:80 final size:79
Alignment explanation
Indices: 61360187--61360411 Score: 240
Period size: 80 Copynumber: 2.8 Consensus size: 79
61360177 GCTCCTCGTT
* * * * *
61360187 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACACAATGCCTTCGGGACATAACCCGG-
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGT-ACTCGCACAAAGCCTTCGGGACTTAACCCGGA
61360251 ATTTAATAACTCGCA
65 ATTTAATAACTCGCA
* * *
61360266 CGAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACAAAGGCCTTCGGGGCTTAACCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTA-CTCGCACAAA-GCCTTCGGGACTTAACCCGG
* *
61360331 AATTT-GTATCTCGCA
64 AATTTAATAACTCGCA
* * * * *
61360346 CAAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCACAAAGCCTTCGGGACTTAGCCCG
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGT-AC-TCGCACAAAGCCTTCGGGACTTAACCCG
61360410 GA
63 GA
61360412 CAGCATTCAA
Statistics
Matches: 122, Mismatches: 18, Indels: 11
0.81 0.12 0.07
Matches are distributed among these distances:
78 1 0.01
79 39 0.32
80 69 0.57
81 13 0.11
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (79 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTACTCGCACAAAGCCTTCGGGACTTAACCCGGAA
TTTAATAACTCGCA
Found at i:61360420 original size:41 final size:41
Alignment explanation
Indices: 61360343--61360420 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
61360333 TTTGTATCTC
* * *
61360343 GCACAAATGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
61360384 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAATGCCTTC-GGATCTTAGCCCGGACA-CATTCA
61360421 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (41 bp):
GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:61365284 original size:47 final size:47
Alignment explanation
Indices: 61365221--61365614 Score: 599
Period size: 47 Copynumber: 8.4 Consensus size: 47
61365211 CCCTTCGGGA
* * * * *
61365221 CTTATCACATTTATACACTTTCACATCCATCACATTGGCTATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
61365268 CTTATCACATATATACACCTTCACATCCATCACATCGGCCATTAGGT
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
61365315 CTTATCTCATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * * *
61365362 CTTATCATATATACACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
61365409 CTTATCACATATATTCACTTTCACATTCATCACATGGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
61365456 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
61365503 CATATCACATATACACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
61365550 CTTATCACATATACACACTTTCACATTCATCACATCGACCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
61365597 CTTATCACATATACACAC
1 CTTATCACATATATACAC
61365615 CTTGTACACC
Statistics
Matches: 321, Mismatches: 26, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
47 321 1.00
ACGTcount: A:0.29, C:0.31, G:0.08, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:61365606 original size:22 final size:22
Alignment explanation
Indices: 61365531--61365606 Score: 62
Period size: 22 Copynumber: 3.3 Consensus size: 22
61365521 TTTCACATTC
*
61365531 ATCACATCGGCCATTAGGCCTT
1 ATCACATCGACCATTAGGCCTT
** *** *
61365553 ATCACATATACACACTTTCACATT
1 ATCACATCGAC-CA-TTAGGCCTT
61365577 CATCACATCGACCATTAGGCCTT
1 -ATCACATCGACCATTAGGCCTT
61365600 ATCACAT
1 ATCACAT
61365607 ATACACACCT
Statistics
Matches: 38, Mismatches: 13, Indels: 6
0.67 0.23 0.11
Matches are distributed among these distances:
22 15 0.39
23 7 0.18
24 7 0.18
25 9 0.24
ACGTcount: A:0.30, C:0.32, G:0.09, T:0.29
Consensus pattern (22 bp):
ATCACATCGACCATTAGGCCTT
Found at i:61369401 original size:40 final size:40
Alignment explanation
Indices: 61369369--61369760 Score: 595
Period size: 40 Copynumber: 9.8 Consensus size: 40
61369359 CCAGCATGAT
* * * *
61369369 TGCTCTTCAGGACCTAGCCCGGATATAACACCAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
** *
61369409 TGCTCTTCGGGGTTTAGCACGGATATATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
* *
61369449 TGCTCTTCGGAACTTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
* * *
61369489 TGCTCTTCGGGACTTAGTCCGGATACATCACGAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
**
61369529 TGCTCTTCGGGACTTAGCCAAGATATATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
*
61369569 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
* * *
61369609 TGCTCTTTGCGACTTAGCCCAGATATATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
61369649 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
* *
61369689 TGCTCTTTGGGACTTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
*
61369729 TGCTCTTCGGGACTTAGCCCAGATATATCACT
1 TGCTCTTCGGGACTTAGCCCGGATATATCACT
61369761 CTTAATTCTC
Statistics
Matches: 317, Mismatches: 35, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
40 317 1.00
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.24
Consensus pattern (40 bp):
TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
Found at i:61372762 original size:80 final size:80
Alignment explanation
Indices: 61372629--61372884 Score: 367
Period size: 80 Copynumber: 3.2 Consensus size: 80
61372619 GATGATAATG
* *
61372629 GGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAATTCCGGGCTAAGTCCCGAAGGCATTTGTG
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATTCCGGGCTAAGTCCCGAAGGCATTTGTG
*
61372694 TGAGTTACTA-ATTCC
66 CGAGTTACTATA-TCC
*
61372709 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATTCCGGGCTAAGTCCCGAAGGCATTTTTG
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATTCCGGGCTAAGTCCCGAAGGCATTTGTG
61372774 CGAGTTACTATATCC
66 CGAGTTACTATATCC
* ** *
61372789 AGGCTAAGTCCCGAAGGCATTTGTGCGAACTACT-ATATCCGGGCTAAGTCCCGAAGGCATTTGA
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT-TCCGGGCTAAGTCCCGAAGGCATTTGT
61372853 GCGAG-TAGCTATATCC
65 GCGAGTTA-CTATATCC
* *
61372869 -GGTTAAATCCCGAAGG
1 GGGCTAAGTCCCGAAGG
61372885 TACTTGGTTT
Statistics
Matches: 162, Mismatches: 11, Indels: 7
0.90 0.06 0.04
Matches are distributed among these distances:
79 18 0.11
80 143 0.88
81 1 0.01
ACGTcount: A:0.24, C:0.22, G:0.27, T:0.27
Consensus pattern (80 bp):
GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATTCCGGGCTAAGTCCCGAAGGCATTTGTG
CGAGTTACTATATCC
Found at i:61372870 original size:40 final size:40
Alignment explanation
Indices: 61372629--61372858 Score: 356
Period size: 40 Copynumber: 5.8 Consensus size: 40
61372619 GATGATAATG
* *
61372629 GGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAATTCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATTCC
*
61372669 GGGCTAAGTCCCGAAGGCATTTGTGTGAGTTACTAATTCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATTCC
61372709 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATTCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATTCC
*
61372749 GGGCTAAGTCCCGAAGGCATTTTTGCGAGTTACT-ATATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT-TCC
* **
61372789 AGGCTAAGTCCCGAAGGCATTTGTGCGAACTACT-ATATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT-TCC
*
61372829 GGGCTAAGTCCCGAAGGCATTTGAGCGAGT
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGT
61372859 AGCTATATCC
Statistics
Matches: 176, Mismatches: 13, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
39 2 0.01
40 174 0.99
ACGTcount: A:0.23, C:0.22, G:0.27, T:0.27
Consensus pattern (40 bp):
GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATTCC
Found at i:61374609 original size:29 final size:29
Alignment explanation
Indices: 61374576--61374650 Score: 114
Period size: 29 Copynumber: 2.6 Consensus size: 29
61374566 TGAATATGAC
* * *
61374576 TGGGCCTAACGGGCCATATAAATGTTATT
1 TGGGCCTAATGGGCCATATAAAGGTGATT
*
61374605 TGGGCCTAATGGGCCATATACAGGTGATT
1 TGGGCCTAATGGGCCATATAAAGGTGATT
61374634 TGGGCCTAATGGGCCAT
1 TGGGCCTAATGGGCCAT
61374651 GTGAATATGG
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
29 42 1.00
ACGTcount: A:0.24, C:0.19, G:0.29, T:0.28
Consensus pattern (29 bp):
TGGGCCTAATGGGCCATATAAAGGTGATT
Found at i:61384749 original size:17 final size:19
Alignment explanation
Indices: 61384719--61384758 Score: 66
Period size: 18 Copynumber: 2.2 Consensus size: 19
61384709 GTGTGGTTCA
61384719 CCCATGTGGGCCCACAC-G
1 CCCATGTGGGCCCACACGG
61384737 CCCATGT-GGCCCACACGG
1 CCCATGTGGGCCCACACGG
61384755 CCCA
1 CCCA
61384759 CCTGATCGAA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
17 9 0.43
18 12 0.57
ACGTcount: A:0.17, C:0.47, G:0.25, T:0.10
Consensus pattern (19 bp):
CCCATGTGGGCCCACACGG
Found at i:61388124 original size:27 final size:27
Alignment explanation
Indices: 61388094--61388271 Score: 196
Period size: 27 Copynumber: 6.6 Consensus size: 27
61388084 ATATTGAGTC
* * * *
61388094 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
61388121 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
*
61388148 CGCACACTTACTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
61388176 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
61388203 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
61388230 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
61388257 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
61388272 GTACAATTTA
Statistics
Matches: 128, Mismatches: 20, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
27 105 0.82
28 23 0.18
ACGTcount: A:0.30, C:0.29, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:61388233 original size:82 final size:81
Alignment explanation
Indices: 61388115--61388270 Score: 224
Period size: 82 Copynumber: 1.9 Consensus size: 81
61388105 TGCTATATAA
* *
61388115 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTACTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTACTGCAACATAGTCAAA-TCGCA
61388180 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * ** *
61388197 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTACTGCAACATAGTCAAATCGCA
61388261 CACTTAGTGC
65 CACTTAGTGC
61388271 TGTACAATTT
Statistics
Matches: 66, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
81 16 0.24
82 50 0.76
ACGTcount: A:0.29, C:0.29, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTACTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:61390869 original size:79 final size:81
Alignment explanation
Indices: 61390733--61390917 Score: 218
Period size: 79 Copynumber: 2.3 Consensus size: 81
61390723 TTGAATGATG
* *
61390733 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAAGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAAGCAAT
61390797 TGTGCGAGATACTA-A
66 TGTGCGAGATACTATA
* * * ** *
61390812 TTCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAAGCA
*
61390874 ATTGTGCGAGTTACTATA
64 ATTGTGCGAGATACTATA
* *
61390892 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
61390918 AACGAGTAGC
Statistics
Matches: 90, Mismatches: 11, Indels: 8
0.83 0.10 0.07
Matches are distributed among these distances:
78 1 0.01
79 56 0.62
80 33 0.37
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAAGCAAT
TGTGCGAGATACTATA
Found at i:61390924 original size:40 final size:40
Alignment explanation
Indices: 61390733--61390917 Score: 216
Period size: 40 Copynumber: 4.7 Consensus size: 40
61390723 TTGAATGATG
* * * *
61390733 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* * * *
61390773 TCCGGACTAAGAT-CCGAAAGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
61390813 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
61390852 TCCGGGTTAAGTCCCGAAGGCAATTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
61390893 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
61390918 AACGAGTAGC
Statistics
Matches: 123, Mismatches: 17, Indels: 10
0.82 0.11 0.07
Matches are distributed among these distances:
39 34 0.28
40 79 0.64
41 10 0.08
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:61393938 original size:52 final size:52
Alignment explanation
Indices: 61393868--61394359 Score: 182
Period size: 53 Copynumber: 9.5 Consensus size: 52
61393858 TGGCATTTGG
* * *
61393868 TAAGATAAGAATATCATGT-AGACCATACTAAGGCATGCATTGATAAGTTCTA
1 TAAGACAAGGATACCATGTAAGACCAT-CTAAGGCATGCATTGATAAGTTCTA
* * * * * *
61393920 TAAGACAAGGATACCATGTAAGACCATGT-TGG-A-ACAGTGA-CA-TT-TGG
1 TAAGACAAGGATACCATGTAAGACCATCTAAGGCATGCATTGATAAGTTCT-A
* * * *
61393967 TAAGATAAGGATATCATGTAAAACCATGCCAAGGCATGGCATTGATAAGTTCTA
1 TAAGACAAGGATACCATGTAAGACCAT-CTAAGGCAT-GCATTGATAAGTTCTA
* ** * * **
61394021 TAAGACAAGGATACCATGTAAGACCATGTTTGG-A-ACATGGCAT---TT-GG
1 TAAGACAAGGATACCATGTAAGACCATCTAAGGCATGCATTG-ATAAGTTCTA
* * * * *
61394068 TAAGATAAGGATATCATGTAAGACCGTGC-CAGGCATGTCATTGATAAGTACTA
1 TAAGACAAGGATACCATGTAAGACCAT-CTAAGGCATG-CATTGATAAGTTCTA
* * * * * * *
61394121 TAAGGCAAGGAAATCATGTAAGACCATGTCAAGACATGCA-TGATGAGTTATTA
1 TAAGACAAGGATACCATGTAAGACCATCT-AAGGCATGCATTGATAAGTT-CTA
* * * * * *
61394174 TAAGGCAAAGG-TCCCATTTAAGACCATGCCAA-TCATGGCATTGGA-GAGTTC-A
1 TAAGAC-AAGGATACCATGTAAGACCAT-CTAAGGCAT-GCATT-GATAAGTTCTA
* * * * *
61394226 TAAGGCAAGGATACCATGTAAGACCATGTCAAGACATGGCATTGATGAGTTACCA
1 TAAGACAAGGATACCATGTAAGACCATCT-AAGGCAT-GCATTGATAAGTT-CTA
* * * * * *
61394281 TAAGGAAAATG-TCCCATGTAAGACCATGCCAAGGCATGGCATTGGTGAGTTCT-
1 TAA-GACAAGGATACCATGTAAGACCAT-CTAAGGCAT-GCATTGATAAGTTCTA
* * * *
61394334 CAAGGC-AGGATACCACGGAAGACCAT
1 TAAGACAAGGATACCATGTAAGACCAT
61394360 GTCAGACATG
Statistics
Matches: 324, Mismatches: 80, Indels: 72
0.68 0.17 0.15
Matches are distributed among these distances:
46 1 0.00
47 52 0.16
48 4 0.01
49 9 0.03
50 10 0.03
51 10 0.03
52 73 0.23
53 76 0.23
54 44 0.14
55 41 0.13
56 4 0.01
ACGTcount: A:0.36, C:0.17, G:0.23, T:0.24
Consensus pattern (52 bp):
TAAGACAAGGATACCATGTAAGACCATCTAAGGCATGCATTGATAAGTTCTA
Found at i:61393977 original size:47 final size:47
Alignment explanation
Indices: 61393832--61394092 Score: 143
Period size: 47 Copynumber: 5.3 Consensus size: 47
61393822 ACCATGTAAG
* * * *
61393832 ACCATGGTAAGACCATGTTTGGAACATGGCATTTGGTAAGATAAGAAT
1 ACCAT-GTAAGACCATGCTTGGAACATGACATTTGGTAAGACAAGGAT
* * * * * *
61393880 ATCATGT-AGACCATACTAAGGCATGCATTGATAAGTTCT-ATAAGACAAGGAT
1 ACCATGTAAGACCATGCT-TGG-A-ACA-TGA-CA-TT-TGGTAAGACAAGGAT
*
61393932 ACCATGTAAGACCATG-TTGGAACAGTGACATTTGGTAAGATAAGGAT
1 ACCATGTAAGACCATGCTTGGAACA-TGACATTTGGTAAGACAAGGAT
* * ** * * *
61393979 ATCATGTAAAACCATGCCAAGGCATGGCATTGATAAGTTCT-ATAAGACAAGGAT
1 ACCATGTAAGACCATG-CTTGG-A--ACA-TGA-CA-TT-TGGTAAGACAAGGAT
* * *
61394033 ACCATGTAAGACCATGTTTGGAACATGGCATTTGGTAAGATAAGGAT
1 ACCATGTAAGACCATGCTTGGAACATGACATTTGGTAAGACAAGGAT
*
61394080 ATCATGTAAGACC
1 ACCATGTAAGACC
61394093 GTGCCAGGCA
Statistics
Matches: 157, Mismatches: 38, Indels: 37
0.68 0.16 0.16
Matches are distributed among these distances:
46 10 0.06
47 56 0.36
48 7 0.04
49 11 0.07
50 6 0.04
51 3 0.02
52 25 0.16
53 11 0.07
54 27 0.17
55 1 0.01
ACGTcount: A:0.37, C:0.15, G:0.23, T:0.26
Consensus pattern (47 bp):
ACCATGTAAGACCATGCTTGGAACATGACATTTGGTAAGACAAGGAT
Found at i:61394043 original size:101 final size:101
Alignment explanation
Indices: 61393832--61394149 Score: 491
Period size: 101 Copynumber: 3.2 Consensus size: 101
61393822 ACCATGTAAG
* *
61393832 ACCATGGTAAGACCATGTTTGGAACATGGCATTTGGTAAGATAAGAATATCATGT-AGACCATAC
1 ACCAT-GTAAGACCATGTTTGGAACATGGCATTTGGTAAGATAAGGATATCATGTAAGACCATGC
*
61393896 TAAGGCAT-GCATTGATAAGTTCTATAAGACAAGGAT
65 CAAGGCATGGCATTGATAAGTTCTATAAGACAAGGAT
* *
61393932 ACCATGTAAGACCATG-TTGGAACAGTGACATTTGGTAAGATAAGGATATCATGTAAAACCATGC
1 ACCATGTAAGACCATGTTTGGAACA-TGGCATTTGGTAAGATAAGGATATCATGTAAGACCATGC
61393996 CAAGGCATGGCATTGATAAGTTCTATAAGACAAGGAT
65 CAAGGCATGGCATTGATAAGTTCTATAAGACAAGGAT
*
61394033 ACCATGTAAGACCATGTTTGGAACATGGCATTTGGTAAGATAAGGATATCATGTAAGACCGTGCC
1 ACCATGTAAGACCATGTTTGGAACATGGCATTTGGTAAGATAAGGATATCATGTAAGACCATGCC
* * * *
61394098 -AGGCATGTCATTGATAAGTACTATAAGGCAAGGAA
66 AAGGCATGGCATTGATAAGTTCTATAAGACAAGGAT
*
61394133 ATCATGTAAGACCATGT
1 ACCATGTAAGACCATGT
61394150 CAAGACATGC
Statistics
Matches: 201, Mismatches: 13, Indels: 8
0.91 0.06 0.04
Matches are distributed among these distances:
98 8 0.04
99 38 0.19
100 66 0.33
101 81 0.40
102 8 0.04
ACGTcount: A:0.36, C:0.15, G:0.23, T:0.26
Consensus pattern (101 bp):
ACCATGTAAGACCATGTTTGGAACATGGCATTTGGTAAGATAAGGATATCATGTAAGACCATGCC
AAGGCATGGCATTGATAAGTTCTATAAGACAAGGAT
Found at i:61394176 original size:53 final size:54
Alignment explanation
Indices: 61394074--61394372 Score: 235
Period size: 53 Copynumber: 5.6 Consensus size: 54
61394064 TTGGTAAGAT
* * * * * * *
61394074 AAGGATATCATGTAAGACCGTG-CCAGGCATGTCATTGATAAGTACTATAAGGC
1 AAGGATACCATGTAAGACCATGTCAAGACATGGCATTGATGAGTATTATAAGGC
* *
61394127 AAGGAAATCATGTAAGACCATGTCAAGACAT-GCA-TGATGAGTTATTATAAGGC
1 AAGGATACCATGTAAGACCATGTCAAGACATGGCATTGATGAG-TATTATAAGGC
* * * * *
61394180 AAAGG-TCCCATTTAAGACCATGCCAA-TCATGGCATTGGA-GAGT-TCATAAGGC
1 -AAGGATACCATGTAAGACCATGTCAAGACATGGCATT-GATGAGTATTATAAGGC
** *
61394232 AAGGATACCATGTAAGACCATGTCAAGACATGGCATTGATGAGTTACCATAAGGAA
1 AAGGATACCATGTAAGACCATGTCAAGACATGGCATTGATGAG-TATTATAAGG-C
* * * * * *
61394288 AATG-TCCCATGTAAGACCATGCCAAGGCATGGCATTGGTGAGT-TCT-CAAGGC
1 AAGGATACCATGTAAGACCATGTCAAGACATGGCATTGATGAGTAT-TATAAGGC
* *
61394340 -AGGATACCACGGAAGACCATGTC-AGACATGGCA
1 AAGGATACCATGTAAGACCATGTCAAGACATGGCA
61394373 ATGGTAAGTT
Statistics
Matches: 197, Mismatches: 35, Indels: 30
0.75 0.13 0.11
Matches are distributed among these distances:
51 15 0.08
52 52 0.26
53 68 0.35
54 16 0.08
55 43 0.22
56 3 0.02
ACGTcount: A:0.35, C:0.19, G:0.24, T:0.22
Consensus pattern (54 bp):
AAGGATACCATGTAAGACCATGTCAAGACATGGCATTGATGAGTATTATAAGGC
Found at i:61394178 original size:101 final size:100
Alignment explanation
Indices: 61393832--61394380 Score: 449
Period size: 101 Copynumber: 5.4 Consensus size: 100
61393822 ACCATGTAAG
*** * * *
61393832 ACCATGGTAAGACCATGTTTGGAACATGGCATTTGGTAAGATAAGAATATCATGT-AGACCATAC
1 ACCAT-GTAAGACCATGTCAAGAACATGGCATATGGTAAGATAAGGATATCATGTAAGACCATGC
*
61393896 TAAGGCAT-GCATTGATAAGTTCTATAAGACAAGGAT
65 -CAGGCATGGCATTGATAAGTTCTATAAGACAAGGAT
** * * *
61393932 ACCATGTAAGACCATGT-TGGAACAGTGACATTTGGTAAGATAAGGATATCATGTAAAACCATGC
1 ACCATGTAAGACCATGTCAAGAACA-TGGCATATGGTAAGATAAGGATATCATGTAAGACCATGC
61393996 CAAGGCATGGCATTGATAAGTTCTATAAGACAAGGAT
65 C-AGGCATGGCATTGATAAGTTCTATAAGACAAGGAT
*** * *
61394033 ACCATGTAAGACCATGTTTGGAACATGGCATTTGGTAAGATAAGGATATCATGTAAGACCGTGCC
1 ACCATGTAAGACCATGTCAAGAACATGGCATATGGTAAGATAAGGATATCATGTAAGACCATGCC
* * * *
61394098 AGGCATGTCATTGATAAGTACTATAAGGCAAGGAA
66 AGGCATGGCATTGATAAGTTCTATAAGACAAGGAT
* ** * *
61394133 ATCATGTAAGACCATGTCAAG-ACAT-GCATGATGAGTTATTATAAGGCAAAGGTCCCATTTAAG
1 ACCATGTAAGACCATGTCAAGAACATGGCAT-ATG-G-TAAGATAAGG-ATA--T--CATGTAAG
** * *
61394196 ACCATGCCAATCATGGCATTGGA-GAGTTC-ATAAGGCAAGGAT
58 ACCATGCCAGGCATGGCATT-GATAAGTTCTATAAGACAAGGAT
** *
61394238 ACCATGTAAGACCATGTCAAG-ACATGGCATTGATGAGTTACCATAAGGAAAATGTCCCATGTAA
1 ACCATGTAAGACCATGTCAAGAACATGGCA-T-ATG-G-TAAGATAAGG---ATAT--CATGTAA
* * * *
61394302 GACCATGCCAAGGCATGGCATTGGTGAGTTCT-CAAGGC-AGGAT
57 GACCATGCC-AGGCATGGCATTGATAAGTTCTATAAGACAAGGAT
* *
61394345 ACCACGGAAGACCATGTC-AG-ACATGGCA-ATGGTAAG
1 ACCATGTAAGACCATGTCAAGAACATGGCATATGGTAAG
61394381 TTCAAAAGAA
Statistics
Matches: 385, Mismatches: 43, Indels: 41
0.82 0.09 0.09
Matches are distributed among these distances:
98 11 0.03
99 45 0.12
100 67 0.17
101 92 0.24
102 10 0.03
103 3 0.01
104 1 0.00
105 36 0.09
106 40 0.10
107 58 0.15
108 21 0.05
109 1 0.00
ACGTcount: A:0.36, C:0.17, G:0.24, T:0.24
Consensus pattern (100 bp):
ACCATGTAAGACCATGTCAAGAACATGGCATATGGTAAGATAAGGATATCATGTAAGACCATGCC
AGGCATGGCATTGATAAGTTCTATAAGACAAGGAT
Found at i:61394311 original size:107 final size:107
Alignment explanation
Indices: 61394082--61394372 Score: 362
Period size: 107 Copynumber: 2.7 Consensus size: 107
61394072 ATAAGGATAT
* * * * * *
61394082 CATGTAAGACCGTGCC-AGGCATGTCATT-GATAAGTACTATAAGGCAAGGAAATCATGTAAGAC
1 CATGTAAGACCATGCCAAGGCATGGCATTGGA-GAGTTC-ATAAGGCAAGGATACCATGTAAGAC
** *
61394145 CATGTCAAGACAT-GCATGATGAGTTATTATAAGGCAAAGGTCC
64 CATGTCAAGACATGGCATGATGAGTTACCATAAGGAAAAGGTCC
* *
61394188 CATTTAAGACCATGCCAA-TCATGGCATTGGAGAGTTCATAAGGCAAGGATACCATGTAAGACCA
1 CATGTAAGACCATGCCAAGGCATGGCATTGGAGAGTTCATAAGGCAAGGATACCATGTAAGACCA
*
61394252 TGTCAAGACATGGCATTGATGAGTTACCATAAGGAAAATGTCC
66 TGTCAAGACATGGCA-TGATGAGTTACCATAAGGAAAAGGTCC
* * *
61394295 CATGTAAGACCATGCCAAGGCATGGCATTGGTGAGTTC-TCAAGGC-AGGATACCACGGAAGACC
1 CATGTAAGACCATGCCAAGGCATGGCATTGGAGAGTTCAT-AAGGCAAGGATACCATGTAAGACC
61394358 ATGTC-AGACATGGCA
65 ATGTCAAGACATGGCA
61394373 ATGGTAAGTT
Statistics
Matches: 162, Mismatches: 17, Indels: 12
0.85 0.09 0.06
Matches are distributed among these distances:
105 36 0.22
106 39 0.24
107 65 0.40
108 22 0.14
ACGTcount: A:0.34, C:0.19, G:0.24, T:0.22
Consensus pattern (107 bp):
CATGTAAGACCATGCCAAGGCATGGCATTGGAGAGTTCATAAGGCAAGGATACCATGTAAGACCA
TGTCAAGACATGGCATGATGAGTTACCATAAGGAAAAGGTCC
Found at i:61412310 original size:30 final size:30
Alignment explanation
Indices: 61412274--61412351 Score: 147
Period size: 30 Copynumber: 2.6 Consensus size: 30
61412264 ATGTGCTAAG
61412274 GTCGTGTCTCTCACACGGTCGAGACACACA
1 GTCGTGTCTCTCACACGGTCGAGACACACA
61412304 GTCGTGTCTCTCACACGGTCGAGACACACA
1 GTCGTGTCTCTCACACGGTCGAGACACACA
*
61412334 GCCGTGTCTCTCACACGG
1 GTCGTGTCTCTCACACGG
61412352 GCGTGTCGCC
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
30 47 1.00
ACGTcount: A:0.21, C:0.35, G:0.24, T:0.21
Consensus pattern (30 bp):
GTCGTGTCTCTCACACGGTCGAGACACACA
Found at i:61413354 original size:50 final size:50
Alignment explanation
Indices: 61413240--61413385 Score: 172
Period size: 50 Copynumber: 3.0 Consensus size: 50
61413230 CAAATAATAA
* * * *
61413240 GATGCCAACGCCATATCCCAGATATGGTCTTAT-ATGGGATCAC-TA-CTC
1 GATGCCAATGCCATGTCCCAGACATGGTCTT-TCATGGGATCTCATATCTC
* * *
61413288 GTTGCCAATGCCATGTCCCAGACATGGTCTTTCATGGAATCTCATATGTC
1 GATGCCAATGCCATGTCCCAGACATGGTCTTTCATGGGATCTCATATCTC
** *
61413338 GATGCCAATGCCATGTCTTAGACATGGTCTTACATGGGATCTCATATC
1 GATGCCAATGCCATGTCCCAGACATGGTCTTTCATGGGATCTCATATC
61413386 AACGCCATAT
Statistics
Matches: 82, Mismatches: 13, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
47 1 0.01
48 35 0.43
49 2 0.02
50 44 0.54
ACGTcount: A:0.25, C:0.25, G:0.20, T:0.30
Consensus pattern (50 bp):
GATGCCAATGCCATGTCCCAGACATGGTCTTTCATGGGATCTCATATCTC
Found at i:61416215 original size:54 final size:54
Alignment explanation
Indices: 61416032--61416226 Score: 216
Period size: 55 Copynumber: 3.6 Consensus size: 54
61416022 CATACAATTT
* * * * * * *
61416032 CCATGTCTTGATATGGTCTTACGTGGTATCCTTACCTTAT-GAACTCACCAATT
1 CCATGCCTTGACATGGTCTTACATGATATCCTTGCCTTATAGAACTCATCAATG
* *
61416085 CCATGCTTTGACATGGTCTTACAT-AGGA-CCTTTGCCTTATAGTAACTCATCAATG
1 CCATGCCTTGACATGGTCTTACATGA-TATCC-TTGCCTTATAG-AACTCATCAATG
* * * *
61416140 CCATGTCTTGACATAGTCTTACATGATTTCCTTGCCTTATAGAACTTATCAATG
1 CCATGCCTTGACATGGTCTTACATGATATCCTTGCCTTATAGAACTCATCAATG
*
61416194 CCATGCCTTGGCATGGTCTTACATGATATCCTT
1 CCATGCCTTGACATGGTCTTACATGATATCCTT
61416227 ATCTTACCAA
Statistics
Matches: 117, Mismatches: 19, Indels: 11
0.80 0.13 0.07
Matches are distributed among these distances:
52 2 0.02
53 29 0.25
54 41 0.35
55 42 0.36
56 3 0.03
ACGTcount: A:0.24, C:0.24, G:0.15, T:0.37
Consensus pattern (54 bp):
CCATGCCTTGACATGGTCTTACATGATATCCTTGCCTTATAGAACTCATCAATG
Found at i:61416260 original size:47 final size:47
Alignment explanation
Indices: 61416205--61416326 Score: 210
Period size: 47 Copynumber: 2.6 Consensus size: 47
61416195 CATGCCTTGG
*
61416205 CATGGTCTTACATGATATCCTTATCTTACCAAATGCCATGTTCCAAA
1 CATGGTCTTACATGATATCCTTGTCTTACCAAATGCCATGTTCCAAA
61416252 CATGGTCTTACATGGA-ATCCTTGTCTTACCAAATGCCATGTTCCAAA
1 CATGGTCTTACAT-GATATCCTTGTCTTACCAAATGCCATGTTCCAAA
*
61416299 CATGGTCTTACATGGTATCCTTGTCTTA
1 CATGGTCTTACATGATATCCTTGTCTTA
61416327 GTGCCAAGCC
Statistics
Matches: 71, Mismatches: 2, Indels: 4
0.92 0.03 0.05
Matches are distributed among these distances:
46 1 0.01
47 68 0.96
48 2 0.03
ACGTcount: A:0.26, C:0.25, G:0.14, T:0.35
Consensus pattern (47 bp):
CATGGTCTTACATGATATCCTTGTCTTACCAAATGCCATGTTCCAAA
Found at i:61424326 original size:48 final size:48
Alignment explanation
Indices: 61424257--61424373 Score: 180
Period size: 48 Copynumber: 2.4 Consensus size: 48
61424247 TAGGGTTATG
*
61424257 TGTGATCCCATGTAAGACCATGTCTAGGACATGGCATTGGCATTGATA
1 TGTGATCCCATGTAAGACCATGTCTAGGACATGGCATTGGCATCGATA
* *
61424305 TGTGATCCCATGTAAGACCATGTCTGGGACGTGGCATTGGCATCGATA
1 TGTGATCCCATGTAAGACCATGTCTAGGACATGGCATTGGCATCGATA
* * *
61424353 TTTGATCCTATGCAAGACCAT
1 TGTGATCCCATGTAAGACCAT
61424374 ATGGCATTGA
Statistics
Matches: 63, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
48 63 1.00
ACGTcount: A:0.26, C:0.21, G:0.25, T:0.29
Consensus pattern (48 bp):
TGTGATCCCATGTAAGACCATGTCTAGGACATGGCATTGGCATCGATA
Found at i:61427111 original size:28 final size:28
Alignment explanation
Indices: 61427045--61427172 Score: 175
Period size: 28 Copynumber: 4.5 Consensus size: 28
61427035 CATGAGATTG
* * **
61427045 GCACTAAGTGTGCGGGTTTAAATTGCATA
1 GCACTAAGTGTGCGAGTTT-GATTATATA
*
61427074 GCACTAAGTGTGCAAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
61427102 GCACTAAGTGTGCGAGTTTGATTATGTAA
1 GCACTAAGTGTGCGAGTTTGATTATAT-A
61427131 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
61427159 ACACTAAGTGTGCG
1 GCACTAAGTGTGCG
61427173 GACTTACTAT
Statistics
Matches: 89, Mismatches: 9, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
28 45 0.51
29 44 0.49
ACGTcount: A:0.29, C:0.12, G:0.26, T:0.33
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:61427134 original size:57 final size:57
Alignment explanation
Indices: 61427045--61427172 Score: 186
Period size: 57 Copynumber: 2.2 Consensus size: 57
61427035 CATGAGATTG
*
61427045 GCACTAAGTGTGCGGGTTTAAATTGCATAGCACTAAGTGTGCAAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTAAATTGCATAGCACTAAGTGTGCAAGTTTGATTATATA
* * * *
61427102 GCACTAAGTGTGCGAGTTTGATTATGTA-AGCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTAAAT-TGCATAGCACTAAGTGTGCAAGTTTGATTATATA
*
61427159 ACACTAAGTGTGCG
1 GCACTAAGTGTGCG
61427173 GACTTACTAT
Statistics
Matches: 64, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
57 61 0.95
58 3 0.05
ACGTcount: A:0.29, C:0.12, G:0.26, T:0.33
Consensus pattern (57 bp):
GCACTAAGTGTGCGAGTTTAAATTGCATAGCACTAAGTGTGCAAGTTTGATTATATA
Found at i:61431124 original size:49 final size:49
Alignment explanation
Indices: 61431035--61431129 Score: 154
Period size: 49 Copynumber: 1.9 Consensus size: 49
61431025 TCTATTGTGA
* *
61431035 GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATT
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGATAATT
* *
61431084 GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATA
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGATA
61431130 GCTTTGGCTA
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
49 42 1.00
ACGTcount: A:0.26, C:0.19, G:0.27, T:0.27
Consensus pattern (49 bp):
GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGATAATT
Found at i:61432024 original size:22 final size:21
Alignment explanation
Indices: 61431996--61432053 Score: 71
Period size: 22 Copynumber: 2.7 Consensus size: 21
61431986 ATGCAATCTT
* *
61431996 AGATATGATATGTAATCTTAG
1 AGATATGATTTGTAATCCTAG
61432017 AAGATATGATTTTGTAATCCTAG
1 -AGATATGA-TTTGTAATCCTAG
*
61432040 AGATTTGATTTGTA
1 AGATATGATTTGTA
61432054 GATACCCTTT
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
21 6 0.19
22 15 0.47
23 11 0.34
ACGTcount: A:0.34, C:0.05, G:0.19, T:0.41
Consensus pattern (21 bp):
AGATATGATTTGTAATCCTAG
Found at i:61432251 original size:74 final size:73
Alignment explanation
Indices: 61432168--61432314 Score: 267
Period size: 74 Copynumber: 2.0 Consensus size: 73
61432158 TTTTTTTTTG
* *
61432168 AACAATAAGAATTCTTGAGAGCATTCACTCAAATTTCTCTCTCTCTTTTGTGTTCTTATTTTCTG
1 AACAATAAGAATTCTTGAGAGCATTCACTCAAATTTCTCTCTCACTCTTGTGTTCTTATTTT-TG
61432233 TGGCTTGTT
65 TGGCTTGTT
61432242 AACAATAAGAATTCTTGAGAGCATTCACTCAAATTTCTCTCTCACTCTTGTGTTCTTATTTTTGT
1 AACAATAAGAATTCTTGAGAGCATTCACTCAAATTTCTCTCTCACTCTTGTGTTCTTATTTTTGT
61432307 GGCTTGTT
66 GGCTTGTT
61432315 CTTGTCTCGT
Statistics
Matches: 71, Mismatches: 2, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
73 11 0.15
74 60 0.85
ACGTcount: A:0.22, C:0.19, G:0.14, T:0.45
Consensus pattern (73 bp):
AACAATAAGAATTCTTGAGAGCATTCACTCAAATTTCTCTCTCACTCTTGTGTTCTTATTTTTGT
GGCTTGTT
Found at i:61437231 original size:17 final size:17
Alignment explanation
Indices: 61437181--61437231 Score: 66
Period size: 19 Copynumber: 2.9 Consensus size: 17
61437171 TGGAAACATG
*
61437181 ATCTTCGAAGATATGCA
1 ATCTTAGAAGATATGCA
*
61437198 ATCTTAGATATGATATGTA
1 ATCTTAGA-A-GATATGCA
61437217 ATCTTAGAAGATATG
1 ATCTTAGAAGATATG
61437232 ATTTTGTAAC
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
17 13 0.43
18 2 0.07
19 15 0.50
ACGTcount: A:0.37, C:0.10, G:0.18, T:0.35
Consensus pattern (17 bp):
ATCTTAGAAGATATGCA
Found at i:61437231 original size:22 final size:23
Alignment explanation
Indices: 61437203--61437247 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
61437193 ATGCAATCTT
*
61437203 AGATATGA-TATGTAATCTTAGA
1 AGATATGATTATGTAACCTTAGA
*
61437225 AGATATGATTTTGTAACCTTAGA
1 AGATATGATTATGTAACCTTAGA
61437248 GATTTAATTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 8 0.40
23 12 0.60
ACGTcount: A:0.38, C:0.07, G:0.18, T:0.38
Consensus pattern (23 bp):
AGATATGATTATGTAACCTTAGA
Found at i:61437257 original size:22 final size:23
Alignment explanation
Indices: 61437213--61437257 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
61437203 AGATATGATA
* *
61437213 TGTAATCTTAGAAGATATGATTT
1 TGTAACCTTAGAAGATATAATTT
*
61437236 TGTAACCTTAG-AGATTTAATTT
1 TGTAACCTTAGAAGATATAATTT
61437258 GTAGATACCC
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
22 9 0.47
23 10 0.53
ACGTcount: A:0.33, C:0.07, G:0.16, T:0.44
Consensus pattern (23 bp):
TGTAACCTTAGAAGATATAATTT
Found at i:61437983 original size:36 final size:36
Alignment explanation
Indices: 61437943--61438017 Score: 123
Period size: 36 Copynumber: 2.1 Consensus size: 36
61437933 GAATTATCAA
*
61437943 GTGAGTGGTATGTATAGGGACCAAGTTTTATAACAT
1 GTGAGTGGCATGTATAGGGACCAAGTTTTATAACAT
* *
61437979 GTGAGTGGCATGTGTAGGGACCTAGTTTTATAACAT
1 GTGAGTGGCATGTATAGGGACCAAGTTTTATAACAT
61438015 GTG
1 GTG
61438018 TTATTATAAT
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.27, C:0.09, G:0.31, T:0.33
Consensus pattern (36 bp):
GTGAGTGGCATGTATAGGGACCAAGTTTTATAACAT
Found at i:61443802 original size:48 final size:47
Alignment explanation
Indices: 61443744--61443886 Score: 214
Period size: 48 Copynumber: 3.0 Consensus size: 47
61443734 GGGTTATGTG
* * *
61443744 TGATCCCATGTCAGACCATGTCTGGGACATGACATTAGCATCGATAT
1 TGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATAT
61443791 ATGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATAGT
1 -TGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATA-T
* * *
61443840 TGATCCCATGTAAGACCATATCTGGGATATGGCATTGGCATAGATAT
1 TGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATAT
61443887 GAGACATCGT
Statistics
Matches: 88, Mismatches: 6, Indels: 3
0.91 0.06 0.03
Matches are distributed among these distances:
47 1 0.01
48 86 0.98
49 1 0.01
ACGTcount: A:0.28, C:0.20, G:0.24, T:0.28
Consensus pattern (47 bp):
TGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATAT
Found at i:61443900 original size:48 final size:47
Alignment explanation
Indices: 61443743--61443907 Score: 161
Period size: 48 Copynumber: 3.4 Consensus size: 47
61443733 AGGGTTATGT
* * * * * *
61443743 GTGATCCCATGTCAGACCATGTCTGGGACATGACATTAGCATCGATA
1 GTGAACCCATGTAAGACCATATCTGGGACATGGCATTGGCATAGATA
* * * *
61443790 TATGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATA
1 -GTGAACCCATGTAAGACCATATCTGGGACATGGCATTGGCATAGATA
* *
61443838 GTTGATCCCATGTAAGACCATATCTGGGATATGGCATTGGCATAGATA
1 G-TGAACCCATGTAAGACCATATCTGGGACATGGCATTGGCATAGATA
* *
61443886 -TGAGACATCGTGTAAGACCATA
1 GTGA-AC-CCATGTAAGACCATA
61443908 GTTGGGCTAT
Statistics
Matches: 103, Mismatches: 11, Indels: 6
0.86 0.09 0.05
Matches are distributed among these distances:
46 3 0.03
47 1 0.01
48 99 0.96
ACGTcount: A:0.29, C:0.20, G:0.24, T:0.27
Consensus pattern (47 bp):
GTGAACCCATGTAAGACCATATCTGGGACATGGCATTGGCATAGATA
Found at i:61445983 original size:29 final size:30
Alignment explanation
Indices: 61445941--61446031 Score: 111
Period size: 29 Copynumber: 3.2 Consensus size: 30
61445931 ACATGGCTTG
*
61445941 GAAT-TGATTCGGGCC-AGATGGGCCATAT
1 GAATGTGATTTGGGCCTAGATGGGCCATAT
*
61445969 GAATGTGATTTGGGCCTA-ATGGGCAATAT
1 GAATGTGATTTGGGCCTAGATGGGCCATAT
*
61445998 GAATGAGA-TTGGGCCTAG-TGGGCCATAT
1 GAATGTGATTTGGGCCTAGATGGGCCATAT
*
61446026 GCATGT
1 GAATGT
61446032 ATGTAGAATT
Statistics
Matches: 54, Mismatches: 6, Indels: 6
0.82 0.09 0.09
Matches are distributed among these distances:
28 26 0.48
29 27 0.50
30 1 0.02
ACGTcount: A:0.25, C:0.14, G:0.33, T:0.27
Consensus pattern (30 bp):
GAATGTGATTTGGGCCTAGATGGGCCATAT
Done.