Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold487
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: 574485
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
File 2 of 4
Found at i:157285 original size:13 final size:13
Alignment explanation
Indices: 157267--157292 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
157257 TACACAAAGT
157267 ATGTATCGATACA
1 ATGTATCGATACA
157280 ATGTATCGATACA
1 ATGTATCGATACA
157293 CAAAAAAATT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:157311 original size:34 final size:32
Alignment explanation
Indices: 157249--157313 Score: 94
Period size: 32 Copynumber: 2.0 Consensus size: 32
157239 TAGCCAAACT
**
157249 TGTATCGATACACAAAGTATGTATCGATACAA
1 TGTATCGATACACAAAAAATGTATCGATACAA
157281 TGTATCGATACACAAAAAAATTGTATCGATACA
1 TGTATCGATACAC-AAAAAA-TGTATCGATACA
157314 TTGGCTTGTA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
32 13 0.45
33 4 0.14
34 12 0.41
ACGTcount: A:0.43, C:0.15, G:0.14, T:0.28
Consensus pattern (32 bp):
TGTATCGATACACAAAAAATGTATCGATACAA
Found at i:158142 original size:33 final size:32
Alignment explanation
Indices: 158097--158165 Score: 86
Period size: 33 Copynumber: 2.1 Consensus size: 32
158087 TTACCACTGT
* *
158097 TTGTATCGATACATG-GCACATTGTATTGATACA
1 TTGTATCAATACATGAG-A-ATTGTATCGATACA
158130 TTGTATCAATACATGATGAATTGTATCGATACA
1 TTGTATCAATACATGA-GAATTGTATCGATACA
158163 TTG
1 TTG
158166 CTTCAAACGG
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
33 30 0.94
34 1 0.03
35 1 0.03
ACGTcount: A:0.32, C:0.13, G:0.17, T:0.38
Consensus pattern (32 bp):
TTGTATCAATACATGAGAATTGTATCGATACA
Found at i:159617 original size:22 final size:22
Alignment explanation
Indices: 159592--159642 Score: 68
Period size: 22 Copynumber: 2.4 Consensus size: 22
159582 AGCGTTGCTG
159592 CTTGTTGGAGTTTCAATTACTA
1 CTTGTTGGAGTTTCAATTACTA
* * *
159614 CTTGCTGGAGTTTCAGTTGCTA
1 CTTGTTGGAGTTTCAATTACTA
159636 -TTGTTGG
1 CTTGTTGG
159643 TCCTTGGTGT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
21 6 0.24
22 19 0.76
ACGTcount: A:0.16, C:0.14, G:0.25, T:0.45
Consensus pattern (22 bp):
CTTGTTGGAGTTTCAATTACTA
Found at i:159980 original size:23 final size:24
Alignment explanation
Indices: 159954--159998 Score: 65
Period size: 23 Copynumber: 1.9 Consensus size: 24
159944 CTTTTCTTTG
159954 TTGTTTCGATTACT-TTTTTTTCC
1 TTGTTTCGATTACTCTTTTTTTCC
* *
159977 TTGTTTCTATTCCTCTTTTTTT
1 TTGTTTCGATTACTCTTTTTTT
159999 TTGCTACTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 12 0.63
24 7 0.37
ACGTcount: A:0.07, C:0.18, G:0.07, T:0.69
Consensus pattern (24 bp):
TTGTTTCGATTACTCTTTTTTTCC
Found at i:163274 original size:127 final size:127
Alignment explanation
Indices: 162655--163815 Score: 961
Period size: 127 Copynumber: 9.3 Consensus size: 127
162645 AACAAAAGAA
* * * * * * *
162655 AAAATGCATCTTGCTCTTTGACGACTAAAAAGGAGTGCCACTAACTTGTGTGGGCTTT---A-AA
1 AAAAGGCATCCTGCTCTTTGAGGACTAGAAA-G-GTGCCACCAGCTTGTATGGGCTTTAAAAGAA
* * * * * * * *
162716 AAGGAAAAGGTGTCTTACTCTTTAAGGACTAAAAAGAGCCATCAGCTTGTGTGGGCTTTAAAA-G
64 AAAGAAAA-GTGTCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGG
* * * * *
162780 AAGAAGGCATCATGCTTTTTGAGGACTA-AAAGGTGCCGCCAACTTGTATGGGCTTTGAAAGAAA
1 AA-AAGGCATCCTGCTCTTTGAGGACTAGAAAGGTGCCACCAGCTTGTATGGGCTTTAAAAGAAA
* *
162844 AAGAAAAGTGTCCTGATCTTTGAGGACTAAAAGGTGCCACCAATTTGTGTGGGCTTTAAAAGG
65 AAGAAAAGTGTCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGG
* * * * * *
162907 AAAAGGCATCTTGGT-TTTGAAGAGTAGAAAGATGCCACCAGCTTGTGTGGGCTTTAAAAGAAAA
1 AAAAGGCATCCTGCTCTTTGAGGACTAGAAAGGTGCCACCAGCTTGTATGGGCTTTAAAAGAAAA
* * * * * ** *
162971 AGGAAAGTGTTCTGCTCTTTGAGGACTAAAAGGTGCCACGAAATTGTATAAGCTTTGAAAGG
66 AGAAAAGTGTCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGG
* ** * * *
163033 ACAAGGCATCCTGCTCTTTGAGGACTA-AAAGAAGCCACCAGCTTATGTTGGCTATT-AAAG---
1 AAAAGGCATCCTGCTCTTTGAGGACTAGAAAGGTGCCACCAGCTTGTATGGGCT-TTAAAAGAAA
* * * *
163093 --G-AAAGTGTCCTGCTCTTTGAGGACTAAAAGGCGCTACCAATTTGTGTGAGCTTTAAAAGG
65 AAGAAAAGTGTCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGG
* *
163153 AAAAGGCATCCTGCTCTTTGAGGACTAGAAAGGTGCCATCAGCTTCTATGGGCTTTAAAAGAAAA
1 AAAAGGCATCCTGCTCTTTGAGGACTAGAAAGGTGCCACCAGCTTGTATGGGCTTTAAAAGAAAA
* ** * *
163218 AGAAAAGCGTATTGCTCTTGGAGGA-TAAAAATGTGCCACCAACTTGTGTGGGCTTTAAAAGG
66 AGAAAAGTGTCCTGCTCTTTGAGGACT-AAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGG
* * * * *
163280 -AAAGG-ATGTCCTGCTCTTTAAGGACTAGAAATGTGCCGCTAGCTTATATGGGCTTT---A-AA
1 AAAAGGCA--TCCTGCTCTTTGAGGACTAGAAAGGTGCCACCAGCTTGTATGGGCTTTAAAAGAA
* * * * *
163339 AAA-AACA---TCATACTCTTTGAGGACTAGAAAGGTGCCACCAGCTTGT-TGGGCTTTAAAAGA
64 AAAGAAAAGTGTCCTGCTCTTTGAGGACTA-AAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGG
* * * * * *
163399 AAAAGAAAAGCGTCCTACTCTTTGAGGACTA-AAAGGTACCACCAACTTGTGTGAGCTTTAAAAG
1 AAAAG----GCATCCTGCTCTTTGAGGACTAGAAAGGTGCCACCAGCTTGTATGGGCTTTAAAAG
* * * * * * * *
163463 GAAAAG----GTGTCTTTCTCTTTAACGACTGGAAAA-GTGCCACTAGCTTGTGTGGACTTTAAA
62 AAAAAGAAAAGTGTCCTGCTCTTTGAGGACT--AAAAGGTGCCACCAACTTGTGTGGGCTTTAAA
163523 A-G
125 AGG
* * * * *
163525 AAAATGAAAAGCGTCCTGCTTTTTGAGGACTAGAAATGTGCCACCAACTTGTGTGGGCTTTAAAA
1 AAAA-G----GCATCCTGCTCTTTGAGGACTAGAAAGGTGCCACCAGCTTGTATGGGCTTTAAAA
* * *
163590 GAAAAAGAAAAGTGTCCTACTCTTTGAGGACTAAAAGGTGACACCAACTTATGTGGGCTTTAAAA
61 GAAAAAGAAAAGTGTCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTAAAA
163655 GG
126 GG
** * * * *
163657 AAAAGGTGTCCTACTTTTTGAGGACTAGAAAGGTGCCACTAGCTTGTATGGGTTTTAAAAGAAAA
1 AAAAGGCATCCTGCTCTTTGAGGACTAGAAAGGTGCCACCAGCTTGTATGGGCTTTAAAAGAAAA
* * * * * * * * * *
163722 AGGAAAGGGTCCTACTCTTTGAAGACTAATAGGTGGCACTAATTTATGTAGGCTTTAAAAGG
66 AGAAAAGTGTCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGG
** *
163784 AAAAGGTGTCCTGCTCTTTAAGGACTA-AAAGG
1 AAAAGGCATCCTGCTCTTTGAGGACTAGAAAGG
163816 ATAAAAGGTT
Statistics
Matches: 856, Mismatches: 133, Indels: 93
0.79 0.12 0.09
Matches are distributed among these distances:
119 26 0.03
120 101 0.12
121 25 0.03
122 23 0.03
123 43 0.05
124 3 0.00
125 16 0.02
126 250 0.29
127 283 0.33
128 36 0.04
130 4 0.00
131 24 0.03
132 22 0.03
ACGTcount: A:0.33, C:0.16, G:0.24, T:0.27
Consensus pattern (127 bp):
AAAAGGCATCCTGCTCTTTGAGGACTAGAAAGGTGCCACCAGCTTGTATGGGCTTTAAAAGAAAA
AGAAAAGTGTCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGG
Found at i:163580 original size:66 final size:66
Alignment explanation
Indices: 162541--163815 Score: 760
Period size: 65 Copynumber: 20.1 Consensus size: 66
162531 CAGGGTTGAA
* * * * * * *
162541 TAGATAGGTGCCATCAACTTGTGTGGGCTTT--GAGAAAGA-AAAAGAGTCTTGCTCTTTGAGGA
1 TAGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAAGAAAAGTGTCCTACTCTTTGAGGA
162603 C
66 C
* * * *
162604 TAAAAAAGAGTGCCACCAACTTGTGTGGGCTATTAAAAAGAAACAAAAGAAAAAATGCATCTTGC
1 T-AGAAAG-GTGCCACCAACTTGTGTGGGCT-TT-AAAAG--A-AAAAG-AAAAGTG--TCCTAC
*
162669 TCTTTGACGAC
56 TCTTTGAGGAC
* * * * *
162680 TAAAAAGGAGTGCCACTAACTTGTGTGGGCTTT---A-AAAAGGAAAAGGTGTCTTACTCTTTAA
1 TAGAAA-G-GTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAAGAAAA-GTGTCCTACTCTTTGA
162741 GGAC
63 GGAC
* * * * * ** * * *
162745 TA-AAAAGAGCCATCAGCTTGTGTGGGCTTTAAAAG---AAG-AAGGCATCATGCTTTTTGAGGA
1 TAGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAAGAAAAGTGTCCTACTCTTTGAGGA
162805 C
66 C
* * *
162806 TA-AAAGGTGCCGCCAACTTGTATGGGCTTTGAAAGAAAAAGAAAAGTGTCCTGA-TCTTTGAGG
1 TAGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAAGAAAAGTGTCCT-ACTCTTTGAGG
162869 AC
65 AC
* * ** * ** *
162871 TA-AAAGGTGCCACCAATTTGTGTGGGCTTTAAAAGGAAAAG----GCATCTTGGT-TTTGAAGA
1 TAGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAAGAAAAGTGTCCTACTCTTTGAGGA
*
162930 G
66 C
* * * * *
162931 TAGAAAGATGCCACCAGCTTGTGTGGGCTTTAAAAGAAAAAGGAAAGTGTTCTGCTCTTTGAGGA
1 TAGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAAGAAAAGTGTCCTACTCTTTGAGGA
162996 C
66 C
* * * ** * * * ** *
162997 TA-AAAGGTGCCACGAAATTGTATAAGCTTTGAAAGGACAAG----GCATCCTGCTCTTTGAGGA
1 TAGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAAGAAAAGTGTCCTACTCTTTGAGGA
163057 C
66 C
** * * * *
163058 TA-AAAGAAGCCACCAGCTTATGTTGGCTATT-AAAG-----G-AAAGTGTCCTGCTCTTTGAGG
1 TAGAAAGGTGCCACCAACTTGTGTGGGCT-TTAAAAGAAAAAGAAAAGTGTCCTACTCTTTGAGG
163115 AC
65 AC
* * * * * ** *
163117 TA-AAAGGCGCTACCAATTTGTGTGAGCTTTAAAAGGAAAAG----GCATCCTGCTCTTTGAGGA
1 TAGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAAGAAAAGTGTCCTACTCTTTGAGGA
163177 C
66 C
* * * * * ** * *
163178 TAGAAAGGTGCCATCAGCTTCTATGGGCTTTAAAAGAAAAAGAAAAGCGTATTGCTCTTGGAGGA
1 TAGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAAGAAAAGTGTCCTACTCTTTGAGGA
163243 -
66 C
* * * * * *
163243 TAAAAATGTGCCACCAACTTGTGTGGGCTTTAAAAG-GAAAG--GA-TGTCCTGCTCTTTAAGGA
1 TAGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAAGAAAAGTGTCCTACTCTTTGAGGA
163304 C
66 C
* * * * * * * *
163305 TAGAAATGTGCCGCTAGCTTATATGGGCTTT---A-AAAAA-AACA---TCATACTCTTTGAGGA
1 TAGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAAGAAAAGTGTCCTACTCTTTGAGGA
163362 C
66 C
* *
163363 TAGAAAGGTGCCACCAGCTTGT-TGGGCTTTAAAAGAAAAAGAAAAGCGTCCTACTCTTTGAGGA
1 TAGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAAGAAAAGTGTCCTACTCTTTGAGGA
163427 C
66 C
* * * * * * *
163428 TA-AAAGGTACCACCAACTTGTGTGAGCTTTAAAAGGAAAAG----GTGTCTTTCTCTTTAACGA
1 TAGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAAGAAAAGTGTCCTACTCTTTGAGGA
163488 C
66 C
* * * * * * * * *
163489 TGGAAAAGTGCCACTAGCTTGTGTGGACTTTAAAAGAAAATGAAAAGCGTCCTGCTTTTTGAGGA
1 TAGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAAGAAAAGTGTCCTACTCTTTGAGGA
163554 C
66 C
*
163555 TAGAAATGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAAGAAAAGTGTCCTACTCTTTGAGGA
1 TAGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAAGAAAAGTGTCCTACTCTTTGAGGA
163620 C
66 C
* * * *
163621 TA-AAAGGTGACACCAACTTATGTGGGCTTTAAAAGGAAAAG----GTGTCCTACTTTTTGAGGA
1 TAGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAAGAAAAGTGTCCTACTCTTTGAGGA
163681 C
66 C
* * * * * * *
163682 TAGAAAGGTGCCACTAGCTTGTATGGGTTTTAAAAGAAAAAGGAAAGGGTCCTACTCTTTGAAGA
1 TAGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAAGAAAAGTGTCCTACTCTTTGAGGA
163747 C
66 C
* * * * * * * * *
163748 TA-ATAGGTGGCACTAATTTATGTAGGCTTTAAAAGGAAAAG----GTGTCCTGCTCTTTAAGGA
1 TAGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAAGAAAAGTGTCCTACTCTTTGAGGA
163808 C
66 C
163809 TA-AAAGG
1 TAGAAAGG
163816 ATAAAAGGTT
Statistics
Matches: 942, Mismatches: 201, Indels: 140
0.73 0.16 0.11
Matches are distributed among these distances:
56 1 0.00
57 8 0.01
58 34 0.04
59 46 0.05
60 11 0.01
61 219 0.23
62 146 0.15
63 3 0.00
64 32 0.03
65 254 0.27
66 122 0.13
67 6 0.01
68 1 0.00
69 2 0.00
71 2 0.00
72 3 0.00
74 5 0.01
75 7 0.01
76 40 0.04
ACGTcount: A:0.33, C:0.16, G:0.24, T:0.27
Consensus pattern (66 bp):
TAGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAAGAAAAGTGTCCTACTCTTTGAGGA
C
Found at i:168555 original size:14 final size:14
Alignment explanation
Indices: 168536--168564 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
168526 CCATTGTCCT
168536 TAGTACAAAAATGC
1 TAGTACAAAAATGC
168550 TAGTACAAAAATGC
1 TAGTACAAAAATGC
168564 T
1 T
168565 TTTTTAGATT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.48, C:0.14, G:0.14, T:0.24
Consensus pattern (14 bp):
TAGTACAAAAATGC
Found at i:168730 original size:19 final size:18
Alignment explanation
Indices: 168705--168801 Score: 88
Period size: 19 Copynumber: 5.8 Consensus size: 18
168695 CTTTCAGCGA
168705 TTTGTATCGATACATAAG
1 TTTGTATCGATACATAAG
*
168723 TGTTGTATCCATAC--AA-
1 T-TTGTATCGATACATAAG
168739 --TGTATCGATACATAAG
1 TTTGTATCGATACATAAG
168755 TGTTGTATCGATAC--AA-
1 T-TTGTATCGATACATAAG
168771 --TGTATCGATACATAAG
1 TTTGTATCGATACATAAG
168787 TTTTGTATCGATACA
1 -TTTGTATCGATACA
168802 ATGTATCGCT
Statistics
Matches: 64, Mismatches: 2, Indels: 25
0.70 0.02 0.27
Matches are distributed among these distances:
13 21 0.33
15 4 0.06
17 4 0.06
18 1 0.02
19 34 0.53
ACGTcount: A:0.33, C:0.13, G:0.16, T:0.37
Consensus pattern (18 bp):
TTTGTATCGATACATAAG
Found at i:168748 original size:32 final size:32
Alignment explanation
Indices: 168707--168809 Score: 188
Period size: 32 Copynumber: 3.2 Consensus size: 32
168697 TTCAGCGATT
*
168707 TGTATCGATACATAAGTGTTGTATCCATACAA
1 TGTATCGATACATAAGTGTTGTATCGATACAA
168739 TGTATCGATACATAAGTGTTGTATCGATACAA
1 TGTATCGATACATAAGTGTTGTATCGATACAA
*
168771 TGTATCGATACATAAGTTTTGTATCGATACAA
1 TGTATCGATACATAAGTGTTGTATCGATACAA
168803 TGTATCG
1 TGTATCG
168810 CTAGGAAGCT
Statistics
Matches: 69, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 69 1.00
ACGTcount: A:0.33, C:0.14, G:0.17, T:0.36
Consensus pattern (32 bp):
TGTATCGATACATAAGTGTTGTATCGATACAA
Found at i:168776 original size:13 final size:13
Alignment explanation
Indices: 168758--168782 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
168748 ACATAAGTGT
168758 TGTATCGATACAA
1 TGTATCGATACAA
168771 TGTATCGATACA
1 TGTATCGATACA
168783 TAAGTTTTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:168877 original size:21 final size:21
Alignment explanation
Indices: 168833--168889 Score: 89
Period size: 21 Copynumber: 2.8 Consensus size: 21
168823 GCCAAGGAAA
*
168833 TGTATCGATACAT-TTTTCTG
1 TGTATCGATACATCTATTCTG
*
168853 TGTATCGATACATCTATTCTT
1 TGTATCGATACATCTATTCTG
168874 TGTATCGATACATCTA
1 TGTATCGATACATCTA
168890 GGAAGTTTAC
Statistics
Matches: 34, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
20 13 0.38
21 21 0.62
ACGTcount: A:0.25, C:0.18, G:0.12, T:0.46
Consensus pattern (21 bp):
TGTATCGATACATCTATTCTG
Found at i:171287 original size:51 final size:51
Alignment explanation
Indices: 171231--171328 Score: 139
Period size: 51 Copynumber: 1.9 Consensus size: 51
171221 AATTCTCCGC
*
171231 AATCGGGGATA-TCCCAACTCCGATTTTATTT-TCAAAACA-CTAATTTTCTAT
1 AATCGGGAATACT-CCAACTCCGATTTTATTTAT-AAAACATC-AATTTTCTAT
171282 AATCGGGAATACTCCAACTCCGATTTTATTTATAAAACATCAATTTT
1 AATCGGGAATACTCCAACTCCGATTTTATTTATAAAACATCAATTTT
171329 TCATCGGGGA
Statistics
Matches: 43, Mismatches: 1, Indels: 6
0.86 0.02 0.12
Matches are distributed among these distances:
51 40 0.93
52 3 0.07
ACGTcount: A:0.34, C:0.20, G:0.09, T:0.37
Consensus pattern (51 bp):
AATCGGGAATACTCCAACTCCGATTTTATTTATAAAACATCAATTTTCTAT
Found at i:171367 original size:27 final size:27
Alignment explanation
Indices: 171329--171381 Score: 97
Period size: 27 Copynumber: 2.0 Consensus size: 27
171319 CATCAATTTT
*
171329 TCATCGGGGATACTCCAACCCTGTTAA
1 TCATCGGGGATACTCCAACCCCGTTAA
171356 TCATCGGGGATACTCCAACCCCGTTA
1 TCATCGGGGATACTCCAACCCCGTTA
171382 TTTTTGAGGG
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.25, C:0.32, G:0.19, T:0.25
Consensus pattern (27 bp):
TCATCGGGGATACTCCAACCCCGTTAA
Found at i:171401 original size:28 final size:27
Alignment explanation
Indices: 171329--171403 Score: 87
Period size: 27 Copynumber: 2.7 Consensus size: 27
171319 CATCAATTTT
* *
171329 TCATCGGGGATACTCCAACCCTGTTAA
1 TCATAGGGGATACTCCAACCCCGTTAA
* *
171356 TCATCGGGGATACTCCAACCCCGTTAT
1 TCATAGGGGATACTCCAACCCCGTTAA
**
171383 TTTTGAGGGGATACTCCAACC
1 TCAT-AGGGGATACTCCAACC
171404 TCCGGCTTTA
Statistics
Matches: 42, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
27 27 0.64
28 15 0.36
ACGTcount: A:0.24, C:0.29, G:0.20, T:0.27
Consensus pattern (27 bp):
TCATAGGGGATACTCCAACCCCGTTAA
Found at i:171529 original size:50 final size:52
Alignment explanation
Indices: 171470--171640 Score: 179
Period size: 52 Copynumber: 3.3 Consensus size: 52
171460 TATCTCCGAG
* * *
171470 GGGATACTCCAACCCCGGTTTTATTTCCAAATC-TCGATTTTCC-ACAATCA
1 GGGATACTCCAACCCCGGTTTTATTTCCAAAACACCAATTTTCCTACAATCA
* * ** *
171520 GGGATACTCCAACCCCGGCTTTATTTTCAAAACACCAATTTTCCTTTAATCG
1 GGGATACTCCAACCCCGGTTTTATTTCCAAAACACCAATTTTCCTACAATCA
** * * *
171572 GGGATACTCCAACTTCGATTTTATTTCCAAAAACACCAATTTTTC-ACAAT-T
1 GGGATACTCCAACCCCGGTTTTATTTCC-AAAACACCAATTTTCCTACAATCA
171623 GAGGATACTCCAACCCCG
1 G-GGATACTCCAACCCCG
171641 TTAATCATCG
Statistics
Matches: 98, Mismatches: 19, Indels: 6
0.80 0.15 0.05
Matches are distributed among these distances:
50 30 0.31
51 9 0.09
52 44 0.45
53 15 0.15
ACGTcount: A:0.29, C:0.29, G:0.12, T:0.31
Consensus pattern (52 bp):
GGGATACTCCAACCCCGGTTTTATTTCCAAAACACCAATTTTCCTACAATCA
Found at i:171595 original size:52 final size:53
Alignment explanation
Indices: 171470--171614 Score: 145
Period size: 50 Copynumber: 2.8 Consensus size: 53
171460 TATCTCCGAG
** * * * **
171470 GGGATACTCCAACCCCGGTTTTATTTCC-AAATC-TCGATTTTCC-ACAATCA
1 GGGATACTCCAACCCCGACTTTATTTCCAAAAACACCAATTTTCCTTTAATCA
* * *
171520 GGGATACTCCAACCCCGGCTTTATTTTC-AAAACACCAATTTTCCTTTAATCG
1 GGGATACTCCAACCCCGACTTTATTTCCAAAAACACCAATTTTCCTTTAATCA
** *
171572 GGGATACTCCAACTTCGATTTTATTTCCAAAAACACCAATTTT
1 GGGATACTCCAACCCCGACTTTATTTCCAAAAACACCAATTTT
171615 TCACAATTGA
Statistics
Matches: 79, Mismatches: 13, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
50 30 0.38
51 8 0.10
52 27 0.34
53 14 0.18
ACGTcount: A:0.28, C:0.28, G:0.11, T:0.33
Consensus pattern (53 bp):
GGGATACTCCAACCCCGACTTTATTTCCAAAAACACCAATTTTCCTTTAATCA
Found at i:171692 original size:28 final size:27
Alignment explanation
Indices: 171625--171694 Score: 88
Period size: 27 Copynumber: 2.6 Consensus size: 27
171615 TCACAATTGA
*
171625 GGATACTCCAACCCCGTTAATCATCGT
1 GGATACTCCAACCCCGTTAATCATCGG
**
171652 GGATACTCCAACCCCGTT-ATTTTCGAGG
1 GGATACTCCAACCCCGTTAATCATC--GG
171680 GGATACTCCAACCCC
1 GGATACTCCAACCCC
171695 CGACTTTATT
Statistics
Matches: 38, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
26 4 0.11
27 18 0.47
28 16 0.42
ACGTcount: A:0.24, C:0.34, G:0.17, T:0.24
Consensus pattern (27 bp):
GGATACTCCAACCCCGTTAATCATCGG
Found at i:171834 original size:51 final size:51
Alignment explanation
Indices: 171758--171930 Score: 195
Period size: 51 Copynumber: 3.4 Consensus size: 51
171748 TTATCTCCGA
* * * *
171758 GGGGATACTCCAACCCCGGTTTTATTTCCAAATCATCGATTTTCCACAATC
1 GGGGATACTCCAACCTCGGTTTTATTTCCAAAACACCAATTTTCCACAATC
* * **
171809 GGGGATACTCCAACCTCGGCTTTATTTTCAAAACACCAATTTTCCTTTAATC
1 GGGGATACTCCAACCTCGGTTTTATTTCCAAAACACCAATTTTCC-ACAATC
* * * *
171861 GGGGATACTCCAA-CTCCGATTTTATTTTCAAAAACACCAATTTTTCACAATT
1 GGGGATACTCCAACCT-CGGTTTTA-TTTCCAAAACACCAATTTTCCACAATC
*
171913 GAGGATACTCCAACCTCG
1 GGGGATACTCCAACCTCG
171931 TTATTTCATC
Statistics
Matches: 101, Mismatches: 17, Indels: 7
0.81 0.14 0.06
Matches are distributed among these distances:
51 41 0.41
52 40 0.40
53 20 0.20
ACGTcount: A:0.28, C:0.27, G:0.13, T:0.32
Consensus pattern (51 bp):
GGGGATACTCCAACCTCGGTTTTATTTCCAAAACACCAATTTTCCACAATC
Found at i:171874 original size:52 final size:51
Alignment explanation
Indices: 171758--171930 Score: 204
Period size: 52 Copynumber: 3.4 Consensus size: 51
171748 TTATCTCCGA
* * * * *
171758 GGGGATACTCCAACCCCGGTTTTATTTCCAAATCATCGATTTTCCACAATC
1 GGGGATACTCCAACCTCGGTTTTATTTTCAAAACACCAATTTTCCACAATC
* **
171809 GGGGATACTCCAACCTCGGCTTTATTTTCAAAACACCAATTTTCCTTTAATC
1 GGGGATACTCCAACCTCGGTTTTATTTTCAAAACACCAATTTTCC-ACAATC
* * *
171861 GGGGATACTCCAA-CTCCGATTTTATTTTCAAAAACACCAATTTTTCACAATT
1 GGGGATACTCCAACCT-CGGTTTTATTTTC-AAAACACCAATTTTCCACAATC
*
171913 GAGGATACTCCAACCTCG
1 GGGGATACTCCAACCTCG
171931 TTATTTCATC
Statistics
Matches: 103, Mismatches: 15, Indels: 7
0.82 0.12 0.06
Matches are distributed among these distances:
51 41 0.40
52 45 0.44
53 17 0.17
ACGTcount: A:0.28, C:0.27, G:0.13, T:0.32
Consensus pattern (51 bp):
GGGGATACTCCAACCTCGGTTTTATTTTCAAAACACCAATTTTCCACAATC
Found at i:171994 original size:290 final size:286
Alignment explanation
Indices: 171230--172032 Score: 1208
Period size: 290 Copynumber: 2.8 Consensus size: 286
171220 CAATTCTCCG
** * * *
171230 CAATCGGGGATA-TCCCAA-CTCCGATTTTATTTTCAAAACACTAATTTT-CTATAATCGGGAAT
1 CAATCGGGGATACT-CCAACCT-CGGCTTTATTTTCAAAACACCAATTTTCCTTTAATCGGGGAT
* * *
171292 ACTCCAACTCCGATTTTA-TTT-ATAAAACATCAATTTTT--C-ATCGGGGATACTCCAACCCTG
64 ACTCCAACTCCGATTTTATTTTCA-AAAACACCAATTTTTCACAATTGAGGATACTCCAACCC-G
*
171352 TTAATCATCGGGGATACTCCAACCCCGTTATTTTTGAGGGGATACTCCAACCTCCGGCTTTATTT
127 TTAATCATC-GGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACC-CCGGCTTTATTT
*
171417 CTAAGATATTAATTTCTCATAATCGGGGATACTCCAACCCCGTTATCTCCGAGGGGATACTCCAA
190 CTAAAATATTAATTTCTCATAATCGGGGATACTCCAACCCCGTTATCTCCGAGGGGATACTCCAA
171482 CCCCGGTTTTATTTCCAAATCTCGATTTTCCA
255 CCCCGGTTTTATTTCCAAATCTCGATTTTCCA
* *
171514 CAATCAGGGATACTCCAACCCCGGCTTTATTTTCAAAACACCAATTTTCCTTTAATCGGGGATAC
1 CAATCGGGGATACTCCAACCTCGGCTTTATTTTCAAAACACCAATTTTCCTTTAATCGGGGATAC
* *
171579 TCCAACTTCGATTTTATTTCCAAAAACACCAATTTTTCACAATTGAGGATACTCCAACCCCGTTA
66 TCCAACTCCGATTTTATTTTCAAAAACACCAATTTTTCACAATTGAGGATACTCCAA-CCCGTTA
*
171644 ATCATCGTGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCCGACTTTATTTCTA
130 ATCATCG-GGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAA-CCCCGGCTTTATTTCTA
*
171709 AAATATTAATTTCTCATAATCGGGGATACTCTAACCCCGTTATCTCCGAGGGGATACTCCAACCC
193 AAATATTAATTTCTCATAATCGGGGATACTCCAACCCCGTTATCTCCGAGGGGATACTCCAACCC
171774 CGGTTTTATTTCCAAATCATCGATTTTCCA
258 CGGTTTTATTTCCAAATC-TCGATTTTCCA
171804 CAATCGGGGATACTCCAACCTCGGCTTTATTTTCAAAACACCAATTTTCCTTTAATCGGGGATAC
1 CAATCGGGGATACTCCAACCTCGGCTTTATTTTCAAAACACCAATTTTCCTTTAATCGGGGATAC
171869 TCCAACTCCGATTTTATTTTCAAAAACACCAATTTTTCACAATTGAGGATACTCCAACCTCGTTA
66 TCCAACTCCGATTTTATTTTCAAAAACACCAATTTTTCACAATTGAGGATACTCCAACC-CGTTA
* * ** * * *
171934 TTTCATCGGAGATACTCCAACCCCTTTACCTCCGAGGGGATACTCCAACCCCGGCTTTATTCCCA
130 -ATCATCGG-GATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCGGCTTTATTTCTA
* *
171999 AAATATTGATTTCTCATAATTGGGGATACTCCAA
193 AAATATTAATTTCTCATAATCGGGGATACTCCAA
172033 TCCCAATTTT
Statistics
Matches: 473, Mismatches: 31, Indels: 24
0.90 0.06 0.05
Matches are distributed among these distances:
284 39 0.08
285 31 0.07
286 16 0.03
287 1 0.00
288 2 0.00
289 159 0.34
290 185 0.39
291 40 0.08
ACGTcount: A:0.28, C:0.27, G:0.13, T:0.32
Consensus pattern (286 bp):
CAATCGGGGATACTCCAACCTCGGCTTTATTTTCAAAACACCAATTTTCCTTTAATCGGGGATAC
TCCAACTCCGATTTTATTTTCAAAAACACCAATTTTTCACAATTGAGGATACTCCAACCCGTTAA
TCATCGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCGGCTTTATTTCTAAAA
TATTAATTTCTCATAATCGGGGATACTCCAACCCCGTTATCTCCGAGGGGATACTCCAACCCCGG
TTTTATTTCCAAATCTCGATTTTCCA
Found at i:181956 original size:80 final size:81
Alignment explanation
Indices: 181810--181987 Score: 227
Period size: 80 Copynumber: 2.2 Consensus size: 81
181800 GAAGTAACAT
* * * * *
181810 TGGGGTTAGAGTAATCCC-TATGGTGAAAATTTTGATATTTTTGGAAGTAAAAACAGGGTTGGAG
1 TGGGGTTAGAGT-ATCCCAGACGGTAAAAAATTTGATATTTTAGGAAGTAAAAACAGGGTTGGAG
181874 TATCCCCTCAGAAATGA
65 TATCCCCTCAGAAATGA
* * *
181891 TGGGGTTGGAGTATCCCAGACGGTAAAAAATTTGATA-TTTAGGAAGTAAAAA-TGAGGTTGTAG
1 TGGGGTTAGAGTATCCCAGACGGTAAAAAATTTGATATTTTAGGAAGTAAAAACAG-GGTTGGAG
* *
181954 TATCCCCTCGGACATGA
65 TATCCCCTCAGAAATGA
181971 TGGGGTTAGAGTATCCC
1 TGGGGTTAGAGTATCCC
181988 CTTGGAAATG
Statistics
Matches: 84, Mismatches: 11, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
79 1 0.01
80 57 0.68
81 26 0.31
ACGTcount: A:0.31, C:0.12, G:0.28, T:0.29
Consensus pattern (81 bp):
TGGGGTTAGAGTATCCCAGACGGTAAAAAATTTGATATTTTAGGAAGTAAAAACAGGGTTGGAGT
ATCCCCTCAGAAATGA
Found at i:181983 original size:28 final size:28
Alignment explanation
Indices: 181952--182005 Score: 90
Period size: 28 Copynumber: 1.9 Consensus size: 28
181942 ATGAGGTTGT
*
181952 AGTATCCCCTCGGACATGATGGGGTTAG
1 AGTATCCCCTCGGAAATGATGGGGTTAG
*
181980 AGTATCCCCTTGGAAATGATGGGGTT
1 AGTATCCCCTCGGAAATGATGGGGTT
182006 GGAAATCTTC
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
28 24 1.00
ACGTcount: A:0.22, C:0.19, G:0.31, T:0.28
Consensus pattern (28 bp):
AGTATCCCCTCGGAAATGATGGGGTTAG
Found at i:182089 original size:106 final size:108
Alignment explanation
Indices: 181865--182092 Score: 250
Period size: 106 Copynumber: 2.1 Consensus size: 108
181855 AGTAAAAACA
*
181865 GGGTTGGAGTATCCCCTCAGAAATGATGGGGTTGGAGTATCCCAGACGGTAAAAAATTTGATATT
1 GGGTTGGAGTATCCCCTCAGAAATGATGGGGTTGGAGAATCCCAGACGGTAAAAAATTTGATATT
* * *** *
181930 TAGGAAGTAAAAATGAGGTTGTAGTATCCCCTCGGACATGATG
66 TAGAAAATAAAAATGAGGTTGTAGTATCCCCTAAAAAATGATG
* ** * * *
181973 GGGTTAGAGTATCCCCTTGGAAATGATGGGGTTGGA-AATCTTC-GATGGTGAAAAA-TTGATAT
1 GGGTTGGAGTATCCCCTCAGAAATGATGGGGTTGGAGAATC-CCAGACGGTAAAAAATTTGATAT
* *
182035 TTTGAAAATAAAAAT-AGGGTTAG-AGTATCCCTTAAAAAATGATG
65 TTAGAAAATAAAAATGA-GGTT-GTAGTATCCCCTAAAAAATGATG
*
182079 GTGTTGGAGTATCC
1 GGGTTGGAGTATCC
182093 TCGATGGTGA
Statistics
Matches: 100, Mismatches: 17, Indels: 8
0.80 0.14 0.06
Matches are distributed among these distances:
105 1 0.01
106 51 0.51
107 14 0.14
108 34 0.34
ACGTcount: A:0.32, C:0.11, G:0.28, T:0.29
Consensus pattern (108 bp):
GGGTTGGAGTATCCCCTCAGAAATGATGGGGTTGGAGAATCCCAGACGGTAAAAAATTTGATATT
TAGAAAATAAAAATGAGGTTGTAGTATCCCCTAAAAAATGATG
Found at i:182220 original size:159 final size:159
Alignment explanation
Indices: 181974--182356 Score: 443
Period size: 159 Copynumber: 2.4 Consensus size: 159
181964 GACATGATGG
* * * ** * *
181974 GGTTAGAGTA-TCCCCTTGGAAATGATGGGGTTGGA-AATCTTCGATGGTGAAAAATT-GATATT
1 GGTTAGAGTAGT-CCCTCGAAAATGATAGGGTTGGAGAATCCCCAATGGTGAAAAATTCAATATT
* * *
182036 TTGAAAATAAAAATAGGGTTAGAGTATCCCTTAAAAAATGATGGTGTTGGAGTAT-CCTCGATGG
65 TTGAAAATAAAAATAGGGTTAGAGTATCCCTTAAAAAATGATGGGGTTGGAGTATCCCT-AATAG
*
182100 TGAAAAATCGATATTTTGGAAATAAAAACGA
129 TGAAAAATCGATATTTTGGAAATAAAAACAA
* * * *
182131 GGTTGGAGTA-TCCCCTCGAAAATGGTAGGGTTGGAGTATCCCCAATGGTGAAACATTCAATATT
1 GGTTAGAGTAGT-CCCTCGAAAATGATAGGGTTGGAGAATCCCCAATGGTGAAAAATTCAATATT
* * * ** *
182195 TTGGAAATAAAAATGGGGTTGGAGTATCCCTTTGAAAATTATGGGGTTGGAGTATCCCTAATAGT
65 TTGAAAATAAAAATAGGGTTAGAGTATCCCTTAAAAAATGATGGGGTTGGAGTATCCCTAATAGT
* *
182260 GAAAAATTGATATTTTGGAAATAAAAATAA
130 GAAAAATCGATATTTTGGAAATAAAAACAA
* * * * *
182290 GGTTAGAGTAGTCCCTCGAAAATTATGGGGTTGGAGAATCCCCATTGGTAAAAAAATCAATAATT
1 GGTTAGAGTAGTCCCTCGAAAATGATAGGGTTGGAGAATCCCCAATGGTGAAAAATTCAAT-ATT
182355 TT
65 TT
182357 TTTATGAGGA
Statistics
Matches: 189, Mismatches: 32, Indels: 7
0.83 0.14 0.03
Matches are distributed among these distances:
157 30 0.16
158 16 0.08
159 134 0.71
160 9 0.05
ACGTcount: A:0.35, C:0.10, G:0.24, T:0.30
Consensus pattern (159 bp):
GGTTAGAGTAGTCCCTCGAAAATGATAGGGTTGGAGAATCCCCAATGGTGAAAAATTCAATATTT
TGAAAATAAAAATAGGGTTAGAGTATCCCTTAAAAAATGATGGGGTTGGAGTATCCCTAATAGTG
AAAAATCGATATTTTGGAAATAAAAACAA
Found at i:182223 original size:80 final size:80
Alignment explanation
Indices: 181970--182344 Score: 409
Period size: 79 Copynumber: 4.7 Consensus size: 80
181960 CTCGGACATG
* * * ** *
181970 ATGGGGTTAGAGTATCCCCTTGGAAATGATGGGGTTGGA-AATCTTCGATGGTGAAAAATT-GAT
1 ATGGGGTTAGAGTATCCCCTCGAAAATGATGGGGTTGGAGTATCCCCAATGGTGAAAAATTCGAT
*
182033 ATTTTGAAAATAAAA
66 ATTTTGGAAATAAAA
* * ** * * *
182048 ATAGGGTTAGAGTATCCCTTAAAAAATGATGGTGTTGGAGTATCCTCGATGGTGAAAAA-TCGAT
1 ATGGGGTTAGAGTATCCCCTCGAAAATGATGGGGTTGGAGTATCCCCAATGGTGAAAAATTCGAT
182112 ATTTTGGAAATAAAA
66 ATTTTGGAAATAAAA
* * * * * * *
182127 ACGAGGTTGGAGTATCCCCTCGAAAATGGTAGGGTTGGAGTATCCCCAATGGTGAAACATTCAAT
1 ATGGGGTTAGAGTATCCCCTCGAAAATGATGGGGTTGGAGTATCCCCAATGGTGAAAAATTCGAT
182192 ATTTTGGAAATAAAA
66 ATTTTGGAAATAAAA
* * * * * *
182207 ATGGGGTTGGAGTATCCCTTTGAAAATTATGGGGTTGGAGTATCCCTAATAGTGAAAAATT-GAT
1 ATGGGGTTAGAGTATCCCCTCGAAAATGATGGGGTTGGAGTATCCCCAATGGTGAAAAATTCGAT
182271 ATTTTGGAAATAAAA
66 ATTTTGGAAATAAAA
** * * * *
182286 ATAAGGTTAGAGTAGT-CCCTCGAAAATTATGGGGTTGGAGAATCCCCATTGGTAAAAAA
1 ATGGGGTTAGAGTA-TCCCCTCGAAAATGATGGGGTTGGAGTATCCCCAATGGTGAAAAA
182345 ATCAATAATT
Statistics
Matches: 249, Mismatches: 44, Indels: 7
0.83 0.15 0.02
Matches are distributed among these distances:
78 34 0.14
79 144 0.58
80 71 0.29
ACGTcount: A:0.35, C:0.10, G:0.25, T:0.29
Consensus pattern (80 bp):
ATGGGGTTAGAGTATCCCCTCGAAAATGATGGGGTTGGAGTATCCCCAATGGTGAAAAATTCGAT
ATTTTGGAAATAAAA
Found at i:183111 original size:19 final size:18
Alignment explanation
Indices: 183086--183150 Score: 77
Period size: 19 Copynumber: 3.8 Consensus size: 18
183076 ATTTCAACGA
183086 TTTGTATCGATACATAAG
1 TTTGTATCGATACATAAG
183104 TGTTGTATCGATAC--AA-
1 T-TTGTATCGATACATAAG
183120 --TGTATCGATACATAAG
1 TTTGTATCGATACATAAG
183136 TTTTGTATCGATACA
1 -TTTGTATCGATACA
183151 ATGTATCGCT
Statistics
Matches: 40, Mismatches: 0, Indels: 13
0.75 0.00 0.25
Matches are distributed among these distances:
13 11 0.28
15 2 0.05
17 2 0.05
18 1 0.03
19 24 0.60
ACGTcount: A:0.32, C:0.12, G:0.17, T:0.38
Consensus pattern (18 bp):
TTTGTATCGATACATAAG
Found at i:183124 original size:32 final size:32
Alignment explanation
Indices: 183088--183158 Score: 133
Period size: 32 Copynumber: 2.2 Consensus size: 32
183078 TTCAACGATT
183088 TGTATCGATACATAAGTGTTGTATCGATACAA
1 TGTATCGATACATAAGTGTTGTATCGATACAA
*
183120 TGTATCGATACATAAGTTTTGTATCGATACAA
1 TGTATCGATACATAAGTGTTGTATCGATACAA
183152 TGTATCG
1 TGTATCG
183159 CTACGAAGCT
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 38 1.00
ACGTcount: A:0.32, C:0.13, G:0.18, T:0.37
Consensus pattern (32 bp):
TGTATCGATACATAAGTGTTGTATCGATACAA
Found at i:183125 original size:13 final size:13
Alignment explanation
Indices: 183107--183131 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
183097 ACATAAGTGT
183107 TGTATCGATACAA
1 TGTATCGATACAA
183120 TGTATCGATACA
1 TGTATCGATACA
183132 TAAGTTTTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:185703 original size:31 final size:31
Alignment explanation
Indices: 185666--185732 Score: 118
Period size: 31 Copynumber: 2.2 Consensus size: 31
185656 ACATCCTCCC
185666 AAAAAAAAGAGAAAAAAAAAACAAACAAAACA
1 AAAAAAAAGAG-AAAAAAAAACAAACAAAACA
185698 AAAAAAAAGAGAAAAAAAAACAAACAAAA-A
1 AAAAAAAAGAGAAAAAAAAACAAACAAAACA
185728 AAAAA
1 AAAAA
185733 CAACAACAAA
Statistics
Matches: 35, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
30 6 0.17
31 18 0.51
32 11 0.31
ACGTcount: A:0.87, C:0.07, G:0.06, T:0.00
Consensus pattern (31 bp):
AAAAAAAAGAGAAAAAAAAACAAACAAAACA
Found at i:185733 original size:15 final size:15
Alignment explanation
Indices: 185677--185745 Score: 88
Period size: 15 Copynumber: 4.5 Consensus size: 15
185667 AAAAAAAGAG
185677 AAAAAAAAAACAAAC
1 AAAAAAAAAACAAAC
*
185692 AAAACAAAAAA-AAAG
1 AAAA-AAAAAACAAAC
185707 AGAAAAAAAAACAAAC
1 A-AAAAAAAAACAAAC
185723 AAAAAAAAAAC-AAC
1 AAAAAAAAAACAAAC
185737 AACAAAAAA
1 AA-AAAAAA
185746 GGGTCCGGAT
Statistics
Matches: 48, Mismatches: 2, Indels: 8
0.83 0.03 0.14
Matches are distributed among these distances:
14 5 0.10
15 30 0.62
16 13 0.27
ACGTcount: A:0.86, C:0.12, G:0.03, T:0.00
Consensus pattern (15 bp):
AAAAAAAAAACAAAC
Found at i:185743 original size:11 final size:11
Alignment explanation
Indices: 185665--185745 Score: 67
Period size: 11 Copynumber: 7.0 Consensus size: 11
185655 GACATCCTCC
*
185665 CAAAAAAAAGA
1 CAAAAAAAAAA
*
185676 GAAAAAAAAAA
1 CAAAAAAAAAA
185687 CAAACAAAACAAA
1 CAAA-AAAA-AAA
185700 -AAAAAAGAGAAA
1 CAAAAAA-A-AAA
*
185712 -AAAAAACAAA
1 CAAAAAAAAAA
185722 CAAAAAAAAAA
1 CAAAAAAAAAA
185733 CAACAACAAAAAA
1 CAA-AA-AAAAAA
185746 GGGTCCGGAT
Statistics
Matches: 58, Mismatches: 6, Indels: 10
0.78 0.08 0.14
Matches are distributed among these distances:
10 3 0.05
11 27 0.47
12 19 0.33
13 9 0.16
ACGTcount: A:0.84, C:0.11, G:0.05, T:0.00
Consensus pattern (11 bp):
CAAAAAAAAAA
Found at i:185744 original size:31 final size:31
Alignment explanation
Indices: 185665--185745 Score: 105
Period size: 31 Copynumber: 2.6 Consensus size: 31
185655 GACATCCTCC
185665 CAAAAAAAAGAGA-AAAAAAAAACAAACAAAA
1 CAAAAAAAA-AGACAAAAAAAAACAAACAAAA
*
185696 CAAAAAAAAAGAGAAAAAAAAACAAACAAAA
1 CAAAAAAAAAGACAAAAAAAAACAAACAAAA
185727 -AAAAAACAACA-ACAAAAAA
1 CAAAAAA-AA-AGACAAAAAA
185746 GGGTCCGGAT
Statistics
Matches: 46, Mismatches: 1, Indels: 6
0.87 0.02 0.11
Matches are distributed among these distances:
30 9 0.20
31 36 0.78
32 1 0.02
ACGTcount: A:0.84, C:0.11, G:0.05, T:0.00
Consensus pattern (31 bp):
CAAAAAAAAAGACAAAAAAAAACAAACAAAA
Found at i:185745 original size:1 final size:1
Alignment explanation
Indices: 185666--185732 Score: 53
Period size: 1 Copynumber: 67.0 Consensus size: 1
185656 ACATCCTCCC
* * * * * * * * *
185666 AAAAAAAAGAGAAAAAAAAAACAAACAAAACAAAAAAAAAGAGAAAAAAAAACAAACAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
185731 AA
1 AA
185733 CAACAACAAA
Statistics
Matches: 48, Mismatches: 18, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
1 48 1.00
ACGTcount: A:0.87, C:0.07, G:0.06, T:0.00
Consensus pattern (1 bp):
A
Found at i:187238 original size:33 final size:33
Alignment explanation
Indices: 187173--187285 Score: 147
Period size: 34 Copynumber: 3.3 Consensus size: 33
187163 ATTCCTCACC
*
187173 CTTTTAAAGCTCACAACTCCGTGGCACCTTTTT
1 CTTTTAAAGCCCACAACTCCGTGGCACCTTTTT
* *
187206 CTTTTCAAAGCCCACAACTTCGTGGCA-TTTTTT
1 CTTTT-AAAGCCCACAACTCCGTGGCACCTTTTT
*
187239 CCCTTTTAAAGCCAACAACTCCGTGGCACCTTTTT
1 --CTTTTAAAGCCCACAACTCCGTGGCACCTTTTT
187274 CTTTTCAAAGCC
1 CTTTT-AAAGCC
187286 TAAAAGTCAG
Statistics
Matches: 69, Mismatches: 6, Indels: 9
0.82 0.07 0.11
Matches are distributed among these distances:
33 15 0.22
34 44 0.64
35 10 0.14
ACGTcount: A:0.22, C:0.31, G:0.12, T:0.35
Consensus pattern (33 bp):
CTTTTAAAGCCCACAACTCCGTGGCACCTTTTT
Found at i:187305 original size:33 final size:32
Alignment explanation
Indices: 187173--187305 Score: 103
Period size: 34 Copynumber: 4.0 Consensus size: 32
187163 ATTCCTCACC
* *
187173 CTTTT-AAAGCTCACAACTCCGTGGCACCTTTTT
1 CTTTTCAAAGC-CAAAACT-CGTGGCATCTTTTT
*
187206 CTTTTCAAAGCCCACAACTTCGTGGCAT-TTTTT
1 CTTTTCAAAG-CCAAAAC-TCGTGGCATCTTTTT
*
187239 CCCTTTT-AAAGCCAACAACTCCGTGGCACCTTTTT
1 --CTTTTCAAAGCCAA-AACT-CGTGGCATCTTTTT
*
187274 CTTTTCAAAGCCTAAAAGTCAGT-GCATCTTTT
1 CTTTTCAAAGCC-AAAACTC-GTGGCATCTTTT
187306 CCAAAGCCCA
Statistics
Matches: 84, Mismatches: 5, Indels: 22
0.76 0.05 0.20
Matches are distributed among these distances:
33 28 0.33
34 42 0.50
35 14 0.17
ACGTcount: A:0.23, C:0.29, G:0.12, T:0.36
Consensus pattern (32 bp):
CTTTTCAAAGCCAAAACTCGTGGCATCTTTTT
Found at i:187313 original size:28 final size:28
Alignment explanation
Indices: 187273--187433 Score: 126
Period size: 28 Copynumber: 5.9 Consensus size: 28
187263 GGCACCTTTT
187273 TCTTTT-CAAAGCCTAAAAGTCAGT-GCA
1 TCTTTTCCAAAGCC-AAAAGTCAGTGGCA
*
187300 TCTTTTCCAAAGCCCACAAGTCAGTGGCA
1 TCTTTTCCAAAG-CCAAAAGTCAGTGGCA
*
187329 -C---TCCAAAGCCAACA-TCAGTGGCA
1 TCTTTTCCAAAGCCAAAAGTCAGTGGCA
* * * *
187352 CCTTGT-CAAAGCCCACAGTCAGTGGCA
1 TCTTTTCCAAAGCCAAAAGTCAGTGGCA
* *
187379 CCCTTTTCCAAAGCCCACAA-TCAAGTGGCA
1 -TCTTTTCCAAAG-CCAAAAGTC-AGTGGCA
*
187409 TCTTTTCCAAAGCC-ACAGTCAGTGG
1 TCTTTTCCAAAGCCAAAAGTCAGTGG
187434 TACAACCTGT
Statistics
Matches: 110, Mismatches: 11, Indels: 26
0.75 0.07 0.18
Matches are distributed among these distances:
23 9 0.08
24 5 0.05
25 7 0.06
26 10 0.09
27 22 0.20
28 24 0.22
29 23 0.21
30 10 0.09
ACGTcount: A:0.29, C:0.31, G:0.17, T:0.22
Consensus pattern (28 bp):
TCTTTTCCAAAGCCAAAAGTCAGTGGCA
Found at i:187397 original size:29 final size:28
Alignment explanation
Indices: 187290--187433 Score: 160
Period size: 29 Copynumber: 5.3 Consensus size: 28
187280 AAAGCCTAAA
*
187290 AGTCAGT-GCATCTTTTCCAAAGCCCAC
1 AGTCAGTGGCACCTTTTCCAAAGCCCAC
*
187317 AAGTCAGTGGCA-C---TCCAAAGCCAAC
1 -AGTCAGTGGCACCTTTTCCAAAGCCCAC
*
187342 A-TCAGTGGCACCTTGT-CAAAGCCCAC
1 AGTCAGTGGCACCTTTTCCAAAGCCCAC
187368 AGTCAGTGGCACCCTTTTCCAAAGCCCAC
1 AGTCAGTGGCA-CCTTTTCCAAAGCCCAC
* *
187397 AATCAAGTGGCATCTTTTCCAAAG-CCAC
1 AGTC-AGTGGCACCTTTTCCAAAGCCCAC
187425 AGTCAGTGG
1 AGTCAGTGG
187434 TACAACCTGT
Statistics
Matches: 101, Mismatches: 6, Indels: 19
0.80 0.05 0.15
Matches are distributed among these distances:
23 9 0.09
24 2 0.02
25 11 0.11
26 10 0.10
27 15 0.15
28 20 0.20
29 27 0.27
30 7 0.07
ACGTcount: A:0.28, C:0.32, G:0.19, T:0.21
Consensus pattern (28 bp):
AGTCAGTGGCACCTTTTCCAAAGCCCAC
Found at i:187488 original size:73 final size:75
Alignment explanation
Indices: 187369--187508 Score: 241
Period size: 73 Copynumber: 1.9 Consensus size: 75
187359 AAAGCCCACA
187369 GTCAGTGGCACCCTTTTCCAAAGCCCACAATCAAGTGGCATCTTTTCCAAAGC-CAC-AGTCAGT
1 GTCAGTGGCACCCTTTTCCAAAGCCCACAATCAAGTGGCATCTTTTCCAAAGCTCACAAGTCAGT
187432 GGTACAACCT
66 GGTACAACCT
*
187442 GTCAGTGGCACCTTTTTCCAAAGCCCACAAATC-AGTGGCATCTTTTCCAAAGCTCACAAGTCAG
1 GTCAGTGGCACCCTTTTCCAAAGCCCAC-AATCAAGTGGCATCTTTTCCAAAGCTCACAAGTCAG
187506 TGG
65 TGG
187509 CACCCTTTTT
Statistics
Matches: 63, Mismatches: 1, Indels: 4
0.93 0.01 0.06
Matches are distributed among these distances:
73 47 0.75
74 7 0.11
75 9 0.14
ACGTcount: A:0.27, C:0.30, G:0.19, T:0.24
Consensus pattern (75 bp):
GTCAGTGGCACCCTTTTCCAAAGCCCACAATCAAGTGGCATCTTTTCCAAAGCTCACAAGTCAGT
GGTACAACCT
Found at i:187499 original size:29 final size:29
Alignment explanation
Indices: 187442--187831 Score: 496
Period size: 29 Copynumber: 13.3 Consensus size: 29
187432 GGTACAACCT
*
187442 GTCAGTGGCACCTTTTTCCAAAGCCCACAA
1 GTCAGTGGCATC-TTTTCCAAAGCCCACAA
* *
187472 ATCAGTGGCATCTTTTCCAAAGCTCACAA
1 GTCAGTGGCATCTTTTCCAAAGCCCACAA
* * *
187501 GTCAGTGGCACCCTTTTTCAATGCCCACAA
1 GTCAGTGGCA-TCTTTTCCAAAGCCCACAA
*
187531 GTTAGTGGCATCTTTTCCAAAGCCCACAA
1 GTCAGTGGCATCTTTTCCAAAGCCCACAA
*
187560 GTCAGTGGCATCTTTTTCAAAGCCCACAA
1 GTCAGTGGCATCTTTTCCAAAGCCCACAA
* * * * ***
187589 GTTAGTAGCAAC-CTAGAAAAGCCCACAA
1 GTCAGTGGCATCTTTTCCAAAGCCCACAA
*
187617 GTCAGTGGCATCTTTTCCAAAACCCACAA
1 GTCAGTGGCATCTTTTCCAAAGCCCACAA
*
187646 GTCAGTGGCACCCTTTTCCAAAGCCCACAA
1 GTCAGTGGCA-TCTTTTCCAAAGCCCACAA
*
187676 GTCAGTGGTATCTTTT-CAAAGCCCACAA
1 GTCAGTGGCATCTTTTCCAAAGCCCACAA
* *
187704 GTCAGTGGCACCCTTTTCCAAAGTCCACAA
1 GTCAGTGGCA-TCTTTTCCAAAGCCCACAA
*
187734 GTCAGTGGCATATTTTCCAAAGCCCACAA
1 GTCAGTGGCATCTTTTCCAAAGCCCACAA
*
187763 GTCAGTGGCACCCTTTTCCAAAGCCCACAA
1 GTCAGTGGCA-TCTTTTCCAAAGCCCACAA
* * *
187793 GTCAGTGGTATCTTTGCAAAAGCCCACAA
1 GTCAGTGGCATCTTTTCCAAAGCCCACAA
187822 GTCAGTGGCA
1 GTCAGTGGCA
187832 ACCTTCAAAA
Statistics
Matches: 308, Mismatches: 46, Indels: 13
0.84 0.13 0.04
Matches are distributed among these distances:
28 42 0.14
29 159 0.52
30 107 0.35
ACGTcount: A:0.29, C:0.30, G:0.17, T:0.24
Consensus pattern (29 bp):
GTCAGTGGCATCTTTTCCAAAGCCCACAA
Found at i:187538 original size:59 final size:59
Alignment explanation
Indices: 187442--187836 Score: 514
Period size: 59 Copynumber: 6.7 Consensus size: 59
187432 GGTACAACCT
* * * *
187442 GTCAGTGGCACCTTTTTCCAAAGCCCACAAATCAGTGGCA-TCTTTTCCAAAGCTCACAA
1 GTCAGTGGCATCTTTTT-CAAAGCCCACAAGTCAGTGGCACCCTTTTCCAAAGCCCACAA
* * * *
187501 GTCAGTGGCACCCTTTTTCAATGCCCACAAGTTAGTGGCA-TCTTTTCCAAAGCCCACAA
1 GTCAGTGGCA-TCTTTTTCAAAGCCCACAAGTCAGTGGCACCCTTTTCCAAAGCCCACAA
* * * ***
187560 GTCAGTGGCATCTTTTTCAAAGCCCACAAGTTAGTAGCAACC--TAGAAAAGCCCACAA
1 GTCAGTGGCATCTTTTTCAAAGCCCACAAGTCAGTGGCACCCTTTTCCAAAGCCCACAA
* *
187617 GTCAGTGGCATCTTTTCCAAAACCCACAAGTCAGTGGCACCCTTTTCCAAAGCCCACAA
1 GTCAGTGGCATCTTTTTCAAAGCCCACAAGTCAGTGGCACCCTTTTCCAAAGCCCACAA
* *
187676 GTCAGTGGTATC-TTTTCAAAGCCCACAAGTCAGTGGCACCCTTTTCCAAAGTCCACAA
1 GTCAGTGGCATCTTTTTCAAAGCCCACAAGTCAGTGGCACCCTTTTCCAAAGCCCACAA
* *
187734 GTCAGTGGCATATTTTCCAAAGCCCACAAGTCAGTGGCACCCTTTTCCAAAGCCCACAA
1 GTCAGTGGCATCTTTTTCAAAGCCCACAAGTCAGTGGCACCCTTTTCCAAAGCCCACAA
* * *
187793 GTCAGTGGTATC-TTTGCAAAAGCCCACAAGTCAGTGGCAACCTT
1 GTCAGTGGCATCTTTTTC-AAAGCCCACAAGTCAGTGGCACCCTT
187837 CAAAAGCATA
Statistics
Matches: 299, Mismatches: 31, Indels: 12
0.87 0.09 0.04
Matches are distributed among these distances:
57 49 0.16
58 83 0.28
59 160 0.54
60 7 0.02
ACGTcount: A:0.29, C:0.30, G:0.17, T:0.24
Consensus pattern (59 bp):
GTCAGTGGCATCTTTTTCAAAGCCCACAAGTCAGTGGCACCCTTTTCCAAAGCCCACAA
Found at i:188164 original size:52 final size:49
Alignment explanation
Indices: 187902--188287 Score: 364
Period size: 49 Copynumber: 7.7 Consensus size: 49
187892 CTTCTTCTAT
* * *
187902 GTCCAATATCACTGGCCTTGAATCAGCATATTGGCGCCTTTTTCATCTTTAA
1 GTCCAATATCGCTGGCCTTGAATCAGCACATTGGCACC---TTCATCTTTAA
* * *
187954 GTTCAATGTCGCTAGGCCTTGAATCAGCACATTGGCACTTTCATCTTTAA
1 GTCCAATATCGCT-GGCCTTGAATCAGCACATTGGCACCTTCATCTTTAA
* * * * *
188004 GTCCAATATTGCCGACCTTGAATCAGCATATTGGCACCTTTATCTTTAA
1 GTCCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAA
* *
188053 GTCCAATGTCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAA
1 GTCCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAA
* * * *
188102 GACCAATATCGCTGACCTTGAATCAGTACATCGGCACCTCAATCATCTTTAA
1 GTCCAATATCGCTGGCCTTGAATCAGCACATTGGCACCT---TCATCTTTAA
* * * *
188154 GCCCAATATCGCTGGCCTTGAATCAGCATATTGGCA-CATCATCTTCAA
1 GTCCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAA
* * * ** *
188202 GTCTAATGTCGC-GGACCTGTGAATCAGCACATTAGCATTTTTTTCATCTTCAA
1 GTCCAATATCGCTGG-CCT-TGAATCAGCACATTGGCA---CCTTCATCTTTAA
* * *
188255 GTCTAATGTCGCT-GACTGTGAATCAGCACATTG
1 GTCCAATATCGCTGGCCT-TGAATCAGCACATTG
188288 ACATCCTTTT
Statistics
Matches: 282, Mismatches: 41, Indels: 22
0.82 0.12 0.06
Matches are distributed among these distances:
47 2 0.01
48 21 0.07
49 125 0.44
50 20 0.07
51 1 0.00
52 68 0.24
53 45 0.16
ACGTcount: A:0.25, C:0.25, G:0.17, T:0.32
Consensus pattern (49 bp):
GTCCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAA
Found at i:188181 original size:150 final size:148
Alignment explanation
Indices: 187902--188230 Score: 403
Period size: 150 Copynumber: 2.2 Consensus size: 148
187892 CTTCTTCTAT
* * * ** *
187902 GTCCAATATCACTGGCCTTGAATCAGCATATTGGCGCCTTTTTCATCTTTAAGTTCAATGTCGCT
1 GTCCAATGTCGCTGGCCTTGAATCAGCATATTGGCACC--TTTCATCTTTAAGACCAATATCGCT
* * * * *
187967 AGGCCTTGAATCAGCACATTGGCACTTTCATCTTTAAGTCCAATATTGCCGACCTTGAATCAGCA
64 AGACCTTGAATCAGCACATCGGCACTATCATCTTTAAGCCCAATATCGCCGACCTTGAATCAGCA
* * *
188032 TATTGGCACCTTTATCTTTAA
129 TATTGGCA-CATCATCTTCAA
188053 GTCCAATGTCGCTGGCCTTGAATCAGCATATTGGCACC-TTCATCTTTAAGACCAATATCGCT-G
1 GTCCAATGTCGCTGGCCTTGAATCAGCATATTGGCACCTTTCATCTTTAAGACCAATATCGCTAG
* * *
188116 ACCTTGAATCAGTACATCGGCACCTCAATCATCTTTAAGCCCAATATCGCTGGCCTTGAATCAGC
66 ACCTTGAATCAGCACATCGGCA-CT--ATCATCTTTAAGCCCAATATCGCCGACCTTGAATCAGC
188181 ATATTGGCACATCATCTTCAA
128 ATATTGGCACATCATCTTCAA
*
188202 GTCTAATGTCGC-GGACCTGTGAATCAGCA
1 GTCCAATGTCGCTGG-CCT-TGAATCAGCA
188231 CATTAGCATT
Statistics
Matches: 155, Mismatches: 18, Indels: 11
0.84 0.10 0.06
Matches are distributed among these distances:
147 20 0.13
148 25 0.16
149 23 0.15
150 52 0.34
151 35 0.23
ACGTcount: A:0.26, C:0.26, G:0.17, T:0.31
Consensus pattern (148 bp):
GTCCAATGTCGCTGGCCTTGAATCAGCATATTGGCACCTTTCATCTTTAAGACCAATATCGCTAG
ACCTTGAATCAGCACATCGGCACTATCATCTTTAAGCCCAATATCGCCGACCTTGAATCAGCATA
TTGGCACATCATCTTCAA
Found at i:188249 original size:101 final size:98
Alignment explanation
Indices: 187902--188287 Score: 389
Period size: 101 Copynumber: 3.8 Consensus size: 98
187892 CTTCTTCTAT
* * * * * * *
187902 GTCCAATATCACTGGCCTTGAATCAGCATATTGGCGCCTTTTTCATCTTTAAGTTCAATGTCGCT
1 GTCCAATATCGCCGACCTTGAATCAGCACATT-G-GCATCTTTCATCTTTAAGTCCAATGTCGCT
187967 AGGCCTTGAATCAGCACATTGGCACTTTCATCTTTAA
64 -GGCCTTGAATCAGCACATTGGCAC-TTCATCTTTAA
* * *
188004 GTCCAATATTGCCGACCTTGAATCAGCATATTGGCACCTTT-ATCTTTAAGTCCAATGTCGCTGG
1 GTCCAATATCGCCGACCTTGAATCAGCACATTGGCATCTTTCATCTTTAAGTCCAATGTCGCTGG
*
188068 CCTTGAATCAGCATATTGGCACCTTCATCTTTAA
66 CCTTGAATCAGCACATTGGCA-CTTCATCTTTAA
* * * * ** * *
188102 GACCAATATCGCTGACCTTGAATCAGTACATCGGCACCTCAATCATCTTTAAGCCCAATATCGCT
1 GTCCAATATCGCCGACCTTGAATCAGCACATTGGCA--TCTTTCATCTTTAAGTCCAATGTCGCT
* * *
188167 GGCCTTGAATCAGCATATTGGCACATCATCTTCAA
64 GGCCTTGAATCAGCACATTGGCACTTCATCTTTAA
* * * * * * *
188202 GTCTAATGTCGCGGACCTGTGAATCAGCACATTAGCATTTTTTTCATCTTCAAGTCTAATGTCGC
1 GTCCAATATCGCCGACCT-TGAATCAGCACATTGGCA--TCTTTCATCTTTAAGTCCAATGTCGC
*
188267 T-GACTGTGAATCAGCACATTG
63 TGGCCT-TGAATCAGCACATTG
188288 ACATCCTTTT
Statistics
Matches: 238, Mismatches: 40, Indels: 13
0.82 0.14 0.04
Matches are distributed among these distances:
98 63 0.26
99 21 0.09
100 34 0.14
101 92 0.39
102 28 0.12
ACGTcount: A:0.25, C:0.25, G:0.17, T:0.32
Consensus pattern (98 bp):
GTCCAATATCGCCGACCTTGAATCAGCACATTGGCATCTTTCATCTTTAAGTCCAATGTCGCTGG
CCTTGAATCAGCACATTGGCACTTCATCTTTAA
Found at i:189004 original size:13 final size:13
Alignment explanation
Indices: 188986--189010 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
188976 TTCAATGATT
188986 TGTATCGATACAA
1 TGTATCGATACAA
188999 TGTATCGATACA
1 TGTATCGATACA
189011 TAAGTTTTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:189171 original size:52 final size:52
Alignment explanation
Indices: 189115--189243 Score: 240
Period size: 52 Copynumber: 2.5 Consensus size: 52
189105 CACTGATCTT
*
189115 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACATTATGAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATGAAA
*
189167 TGTATCGATACATACAGGCAAATTTGCCCAGATGTATCGATACACTATGAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATGAAA
189219 TGTATCGATACATGCAGGCAAATTT
1 TGTATCGATACATGCAGGCAAATTT
189244 TCATATTTTG
Statistics
Matches: 74, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
52 74 1.00
ACGTcount: A:0.35, C:0.18, G:0.19, T:0.29
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATGAAA
Found at i:200131 original size:1 final size:1
Alignment explanation
Indices: 200115--200214 Score: 56
Period size: 1 Copynumber: 100.0 Consensus size: 1
200105 CTTCATACCC
* * * * * ** * * *
200115 AAAACAAAACAAAAAAAAAACAAAAAAACAGAAAAAACCAAAAAAAAAACAAAAACAAAAAAACA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
* ** * * *
200180 AAAAACAAAAAACCAAGAAAAAAAATAACAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
200215 TAGAAAAGGG
Statistics
Matches: 71, Mismatches: 28, Indels: 0
0.72 0.28 0.00
Matches are distributed among these distances:
1 71 1.00
ACGTcount: A:0.84, C:0.13, G:0.02, T:0.01
Consensus pattern (1 bp):
A
Found at i:200149 original size:21 final size:20
Alignment explanation
Indices: 200115--200214 Score: 96
Period size: 21 Copynumber: 4.8 Consensus size: 20
200105 CTTCATACCC
*
200115 AAAACAAAACAAAAAAA-AA
1 AAAAAAAAACAAAAAAACAA
* *
200134 ACAAAAAAACAGAAAAAACCA
1 AAAAAAAAACA-AAAAAACAA
200155 AAAAAAAAACAAAAACAA-AA
1 AAAAAAAAACAAAAA-AACAA
*
200175 AAACAAAAAACAAAAAACCAAGA
1 AAA-AAAAAACAAAAAAAC-A-A
200198 AAAAAAATAACAAAAAA
1 AAAAAAA-AACAAAAAA
200215 TAGAAAAGGG
Statistics
Matches: 67, Mismatches: 6, Indels: 12
0.79 0.07 0.14
Matches are distributed among these distances:
19 9 0.13
20 15 0.22
21 25 0.37
22 5 0.07
23 13 0.19
ACGTcount: A:0.84, C:0.13, G:0.02, T:0.01
Consensus pattern (20 bp):
AAAAAAAAACAAAAAAACAA
Found at i:200165 original size:40 final size:39
Alignment explanation
Indices: 200115--200214 Score: 121
Period size: 40 Copynumber: 2.5 Consensus size: 39
200105 CTTCATACCC
* *
200115 AAAACAAAACAAAAAAAAAACAA-AAAAACAGAAAAAACCA
1 AAAAAAAAACAAAAAAAAAA-AACAAAAA-ACAAAAAACCA
200155 AAAAAAAAACAAAAACAAAAAAACAAAAAACAAAAAACCA
1 AAAAAAAAACAAAAA-AAAAAAACAAAAAACAAAAAACCA
* *
200195 AGAAAAAAAATAACAAAAAA
1 A-AAAAAAAACAAAAAAAAA
200215 TAGAAAAGGG
Statistics
Matches: 53, Mismatches: 4, Indels: 6
0.84 0.06 0.10
Matches are distributed among these distances:
40 31 0.58
41 22 0.42
ACGTcount: A:0.84, C:0.13, G:0.02, T:0.01
Consensus pattern (39 bp):
AAAAAAAAACAAAAAAAAAAAACAAAAAACAAAAAACCA
Found at i:201474 original size:28 final size:28
Alignment explanation
Indices: 201436--202202 Score: 814
Period size: 28 Copynumber: 26.5 Consensus size: 28
201426 CATTCATCTC
*
201436 TTCAAAGCCCACAAGTTAGTGGCACCCT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
*
201464 TCCAAAGCCCACAAGTCAGTGGCACCCT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
*
201492 TTCAAAGCCCACAAGTCAGTGGCATCCT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
* * *
201520 TTCAAAGCCCATAAGTTAGTGGAACCCT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
**
201548 TTCAAAGCCCACAAGTCAGTGGCACTTTT
1 TTCAAAGCCCACAAGTCAGTGGCAC-CCT
*
201577 TTCAAAGCCCACAAGTTAGTGGCACCCT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
* * * *
201605 TTCAAAGCCTATAAGTTAGTGGCACTCTT
1 TTCAAAGCCCACAAGTCAGTGGCAC-CCT
* *
201634 TTCAAAGCCTACACGAGTCAGTGGCAACTCTT
1 TTCAAAGCC--CACAAGTCAGTGGC-AC-CCT
*
201666 TTCAAAGCCCACACGAGTCAGTGGCAACTCTT
1 TTCAAAGCCCACA--AGTCAGTGGC-AC-CCT
*
201698 TTCAAAGCCCACAAGTCAGTGGCATCCT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
* * *
201726 TTCAAAGCCCACGAGTCGGTGGCAACGCTT
1 TTCAAAGCCCACAAGTCAGTGGC-AC-CCT
* * *
201756 TTCCAAGCCCACAAGTCAGTGGTATCCT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
* *
201784 TTCAAAGCCCACGAGTTAGTGGCACCCT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
* *
201812 TTCAAAGCCCACGAGTTAGTGGCACCCT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
*
201840 TTCAAAGCCCACAAGTGCAGTGGCACTCT
1 TTCAAAGCCCACAAGT-CAGTGGCACCCT
* *
201869 TTCAAAGCCCACGCAAGTTAGTGGTACCCT
1 TTCAAAGCCCA--CAAGTCAGTGGCACCCT
*
201899 TTCAAAGCCCACAAGTCAGTGGCACTCT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
*
201927 TTCAAAGCCCACGCAAGTCAGTGACACCCT
1 TTCAAAGCCCA--CAAGTCAGTGGCACCCT
*
201957 TTCAAAGCCCACAAGTCAGTGGCACTCTT
1 TTCAAAGCCCACAAGTCAGTGGCAC-CCT
* * * *
201986 TTGAAAGCCCATAAGTGAGTGGCACTCTT
1 TTCAAAGCCCACAAGTCAGTGGCAC-CCT
* **
202015 TTTAAAGCCCACAAGTCAGTGGCATTCT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
202043 TTCAAAGCCCACAAGTCAGTGGCACCCT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
* *
202071 TTCAAAGCCCACAAGTCAGTGGTACCTT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
* * * * *
202099 TTTAAAGCCTACAAGCCAGTGGTAGCTCTT
1 TTCAAAGCCCACAAGTCAGTGGCA-C-CCT
** * * *
202129 TTCAAAGCGTACAAGCCAGTGGTAACTCTT
1 TTCAAAGCCCACAAGTCAGTGG-CAC-CCT
* *
202159 TTCAAAGCCCACACAGTCGGTGGCAACTCTT
1 TTCAAAGCCCACA-AGTCAGTGGC-AC-CCT
202190 TTCAAAGCCCACA
1 TTCAAAGCCCACA
202203 CAAGTTAGAG
Statistics
Matches: 640, Mismatches: 79, Indels: 37
0.85 0.10 0.05
Matches are distributed among these distances:
28 324 0.51
29 110 0.17
30 119 0.19
31 42 0.07
32 45 0.07
ACGTcount: A:0.28, C:0.30, G:0.19, T:0.23
Consensus pattern (28 bp):
TTCAAAGCCCACAAGTCAGTGGCACCCT
Found at i:201748 original size:58 final size:57
Alignment explanation
Indices: 201436--202202 Score: 882
Period size: 58 Copynumber: 13.2 Consensus size: 57
201426 CATTCATCTC
* * *
201436 TTCAAAGCCCACAAGTTAGTGGCAC-CCTTCCAAAGCCCACAAGTCAGTGGCACCCT
1 TTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCACCCT
* * * *
201492 TTCAAAGCCCACAAGTCAGTGGCA-TCCTTTCAAAGCCCATAAGTTAGTGGAACCCT
1 TTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCACCCT
* *
201548 TTCAAAGCCCACAAGTCAGTGGCACTTTTTTCAAAGCCCACAAGTTAGTGGCACCCT
1 TTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCACCCT
* * * * *
201605 TTCAAAGCCTATAAGTTAGTGGCACTCTTTTCAAAGCCTACACGAGTCAGTGGCAACTCTT
1 TTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCC--CACAAGTCAGTGGC-AC-CCT
*
201666 TTCAAAGCCCACACGAGTCAGTGGCAACTCTTTTCAAAGCCCACAAGTCAGTGGCATCCT
1 TTCAAAGCCCACA--AGTCAGTGGC-ACTCTTTTCAAAGCCCACAAGTCAGTGGCACCCT
* * * * * *
201726 TTCAAAGCCCACGAGTCGGTGGCAACGCTTTTCCAAGCCCACAAGTCAGTGGTATCCT
1 TTCAAAGCCCACAAGTCAGTGGC-ACTCTTTTCAAAGCCCACAAGTCAGTGGCACCCT
* * * * *
201784 TTCAAAGCCCACGAGTTAGTGGCAC-CCTTTCAAAGCCCACGAGTTAGTGGCACCCT
1 TTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCACCCT
* *
201840 TTCAAAGCCCACAAGTGCAGTGGCACTC-TTTCAAAGCCCACGCAAGTTAGTGGTACCCT
1 TTCAAAGCCCACAAGT-CAGTGGCACTCTTTTCAAAGCCCA--CAAGTCAGTGGCACCCT
*
201899 TTCAAAGCCCACAAGTCAGTGGCACTC-TTTCAAAGCCCACGCAAGTCAGTGACACCCT
1 TTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCA--CAAGTCAGTGGCACCCT
* * * *
201957 TTCAAAGCCCACAAGTCAGTGGCACTCTTTTGAAAGCCCATAAGTGAGTGGCACTCTT
1 TTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCAC-CCT
* *
202015 TTTAAAGCCCACAAGTCAGTGGCATTC-TTTCAAAGCCCACAAGTCAGTGGCACCCT
1 TTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCACCCT
* * * * * *
202071 TTCAAAGCCCACAAGTCAGTGGTAC-CTTTTTAAAGCCTACAAGCCAGTGGTAGCTCTT
1 TTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCA-C-CCT
** * * * *
202129 TTCAAAGCGTACAAGCCAGTGGTAACTCTTTTCAAAGCCCACACAGTCGGTGGCAACTCTT
1 TTCAAAGCCCACAAGTCAGTGG-CACTCTTTTCAAAGCCCACA-AGTCAGTGGC-AC-CCT
202190 TTCAAAGCCCACA
1 TTCAAAGCCCACA
202203 CAAGTTAGAG
Statistics
Matches: 617, Mismatches: 72, Indels: 39
0.85 0.10 0.05
Matches are distributed among these distances:
55 1 0.00
56 159 0.26
57 119 0.19
58 177 0.29
59 56 0.09
60 30 0.05
61 37 0.06
62 14 0.02
63 9 0.01
64 15 0.02
ACGTcount: A:0.28, C:0.30, G:0.19, T:0.23
Consensus pattern (57 bp):
TTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCACCCT
Found at i:203879 original size:13 final size:13
Alignment explanation
Indices: 203861--203885 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
203851 CATAAAGTGT
203861 TGTATCGATACAA
1 TGTATCGATACAA
203874 TGTATCGATACA
1 TGTATCGATACA
203886 TAAGTTTTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:203901 original size:32 final size:33
Alignment explanation
Indices: 203841--203902 Score: 108
Period size: 32 Copynumber: 1.9 Consensus size: 33
203831 TTCAACAATT
203841 TGTATCGATACATAAAGTGTTGTATCGATACAA
1 TGTATCGATACATAAAGTGTTGTATCGATACAA
*
203874 TGTATCGATACAT-AAGTTTTGTATCGATA
1 TGTATCGATACATAAAGTGTTGTATCGATA
203903 AAATTTAAGC
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
32 15 0.54
33 13 0.46
ACGTcount: A:0.34, C:0.11, G:0.18, T:0.37
Consensus pattern (33 bp):
TGTATCGATACATAAAGTGTTGTATCGATACAA
Found at i:203965 original size:13 final size:13
Alignment explanation
Indices: 203947--203974 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
203937 ATTACTCAAA
203947 TGTATCGATACAT
1 TGTATCGATACAT
203960 TGTATCGATACAT
1 TGTATCGATACAT
203973 TG
1 TG
203975 ATCTTTGTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.29, C:0.14, G:0.18, T:0.39
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:204025 original size:52 final size:52
Alignment explanation
Indices: 203980--204108 Score: 213
Period size: 52 Copynumber: 2.5 Consensus size: 52
203970 CATTGATCTT
* *
203980 TGTATCGATACATGTAGGCAAATTTGCCCAGATGTATTGATACATTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACATTATAAAA
* *
204032 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATTAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACATTATAAAA
*
204084 TGTATCGATACATGCATGCAAATTT
1 TGTATCGATACATGCAGGCAAATTT
204109 TCATATTTCG
Statistics
Matches: 72, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
52 72 1.00
ACGTcount: A:0.35, C:0.16, G:0.17, T:0.32
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACATTATAAAA
Found at i:212303 original size:13 final size:13
Alignment explanation
Indices: 212285--212309 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
212275 CATATTGCTT
212285 TGTATTGATACAC
1 TGTATTGATACAC
212298 TGTATTGATACA
1 TGTATTGATACA
212310 TGATCTTGGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.12, G:0.16, T:0.40
Consensus pattern (13 bp):
TGTATTGATACAC
Found at i:220429 original size:44 final size:42
Alignment explanation
Indices: 220379--220468 Score: 135
Period size: 44 Copynumber: 2.1 Consensus size: 42
220369 GGAGAGATTG
*
220379 TTTTGGAAACAAAAATGGGAAGAGATATTTTTTAAAGGGAAACA
1 TTTTGGAAACAAAAAGGGGAAGAGATATTTTTT-AAGGGAAA-A
* *
220423 TTTTGGAAATAAAAAGGGGGAGAGATATTTTTTAAGGGAAAA
1 TTTTGGAAACAAAAAGGGGAAGAGATATTTTTTAAGGGAAAA
220465 TTTT
1 TTTT
220469 TATTAAAGGG
Statistics
Matches: 43, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
42 5 0.12
43 8 0.19
44 30 0.70
ACGTcount: A:0.42, C:0.02, G:0.24, T:0.31
Consensus pattern (42 bp):
TTTTGGAAACAAAAAGGGGAAGAGATATTTTTTAAGGGAAAA
Found at i:220484 original size:21 final size:22
Alignment explanation
Indices: 220460--220503 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
220450 TTTTTTAAGG
220460 GAAAATTTTT-ATTAAAGGGGA
1 GAAAATTTTTAATTAAAGGGGA
*
220481 GAAAATTTTTAATTATAGGGGA
1 GAAAATTTTTAATTAAAGGGGA
220503 G
1 G
220504 TTATATTTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
21 10 0.48
22 11 0.52
ACGTcount: A:0.41, C:0.00, G:0.25, T:0.34
Consensus pattern (22 bp):
GAAAATTTTTAATTAAAGGGGA
Found at i:224708 original size:52 final size:52
Alignment explanation
Indices: 224623--224747 Score: 223
Period size: 52 Copynumber: 2.4 Consensus size: 52
224613 ATACGAAAAG
* *
224623 TTGCTTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGCAAAT
1 TTGCCTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAAT
*
224675 TTGCCTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGCAAAT
1 TTGCCTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAAT
224727 TTGCCTGCATGTATCGATACA
1 TTGCCTGCATGTATCGATACA
224748 AAGATCAATG
Statistics
Matches: 70, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
52 70 1.00
ACGTcount: A:0.28, C:0.18, G:0.18, T:0.36
Consensus pattern (52 bp):
TTGCCTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAAT
Found at i:224758 original size:52 final size:52
Alignment explanation
Indices: 224623--224767 Score: 204
Period size: 52 Copynumber: 2.8 Consensus size: 52
224613 ATACGAAAAG
* * *
224623 TTGCTTGCATGTATCGATACATTTA-ATAGTGTATCGATACATCTGGGCAAAT
1 TTGCCTGCATGTATCGATACA-TAAGATAATGTATCGATACATCTGGGCAAAT
***
224675 TTGCCTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGCAAAT
1 TTGCCTGCATGTATCGATACATAAGATAATGTATCGATACATCTGGGCAAAT
224727 TTGCCTGCATGTATCGATACA-AAGATCAATGTATCGATACA
1 TTGCCTGCATGTATCGATACATAAGAT-AATGTATCGATACA
224768 ATGTATCGAT
Statistics
Matches: 85, Mismatches: 6, Indels: 4
0.89 0.06 0.04
Matches are distributed among these distances:
51 4 0.05
52 81 0.95
ACGTcount: A:0.30, C:0.17, G:0.18, T:0.34
Consensus pattern (52 bp):
TTGCCTGCATGTATCGATACATAAGATAATGTATCGATACATCTGGGCAAAT
Found at i:224771 original size:13 final size:13
Alignment explanation
Indices: 224753--224780 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
224743 ATACAAAGAT
224753 CAATGTATCGATA
1 CAATGTATCGATA
224766 CAATGTATCGATA
1 CAATGTATCGATA
224779 CA
1 CA
224781 TTTTTTGGCA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.39, C:0.18, G:0.14, T:0.29
Consensus pattern (13 bp):
CAATGTATCGATA
Found at i:224841 original size:13 final size:13
Alignment explanation
Indices: 224823--224847 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
224813 AAAAAAAATA
224823 TGTATCGATACAT
1 TGTATCGATACAT
224836 TGTATCGATACA
1 TGTATCGATACA
224848 GCACTTTATG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:225820 original size:55 final size:52
Alignment explanation
Indices: 225723--226288 Score: 408
Period size: 49 Copynumber: 11.8 Consensus size: 52
225713 AAGTGATAAA
* * * * *
225723 GATGCCAATATGTTGATTCACGGCCAACGACATTGGGCTTAAAGATGAGAAAAAT
1 GATGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATG-G--AAAT
* * *
225778 GATGTCAATGTGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGAAAT
1 GATGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGGAAAT
* *
225830 GGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTT-AA-A--G----
1 GATGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGGAAAT
* *
225874 G-TGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGGT-G-AA-
1 GATGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGGAAAT
* * * *
225922 GGTGCCAATATGCTGATTCAAGGCCAGCGATATTCGACTTAAAGAT--AAA-
1 GATGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGGAAAT
* * * *
225971 GGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGA-TT-----T--AAAA
1 GATGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGGAAAT
* * *
226015 G-TGCC-ATGTGCTGATTCAAGGCCAACTACATTGGACTTAAAGA-AG-AA-
1 GATGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGGAAAT
* *
226062 GGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTT-AA-A--G----
1 GATGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGGAAAT
* * *
226106 G-TGCCAATGTGCTGATTCAAGGCCAGTTACATTGGACTTAAAGA-AG-AA-
1 GATGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGGAAAT
* * *
226154 GGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTT-AA-A--G----
1 GATGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGGAAAT
* * *
226198 G-TGCCAATGTGCTGATTCAAGGCCAGCTACATCGGACTTAAAGA-AG-AA-
1 GATGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGGAAAT
* * *
226246 GGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAA
1 GATGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAA
226289 AGGGTTGCCA
Statistics
Matches: 437, Mismatches: 44, Indels: 66
0.80 0.08 0.12
Matches are distributed among these distances:
42 26 0.06
43 115 0.26
44 10 0.02
45 2 0.00
46 5 0.01
47 3 0.01
48 16 0.04
49 178 0.41
50 1 0.00
51 2 0.00
52 39 0.09
54 1 0.00
55 39 0.09
ACGTcount: A:0.32, C:0.18, G:0.25, T:0.25
Consensus pattern (52 bp):
GATGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGGAAAT
Found at i:225943 original size:49 final size:48
Alignment explanation
Indices: 225783--226288 Score: 586
Period size: 49 Copynumber: 10.8 Consensus size: 48
225773 AAAATGATGT
* * *
225783 CAATGTGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGAAATGGTGC
1 CAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGA--G-AA-GGTGC
225835 CAATATGCTGATTCAAGGCCAGCTATATTGGACTT----A-AAGGTGC
1 CAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGAGAAGGTGC
* * *
225878 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGGTGAAGGTGC
1 CAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAA-GAGAAGGTGC
* * *
225927 CAATATGCTGATTCAAGGCCAGCGATATTCGACTTAAAGATAAAGGTGC
1 CAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGA-GAAGGTGC
* *
225976 CAATATGCTGATTCAAGGCCAGCGATATTGGA-TT-TA-A-AA-GTGC
1 CAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGAGAAGGTGC
* * *
226019 C-ATGTGCTGATTCAAGGCCAACTACATTGGACTTAAAGAAGAAGGTGC
1 CAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAG-AGAAGGTGC
226067 CAATATGCTGATTCAAGGCCAGCTATATTGGACTT----A-AAGGTGC
1 CAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGAGAAGGTGC
* * *
226110 CAATGTGCTGATTCAAGGCCAGTTACATTGGACTTAAAGAAGAAGGTGC
1 CAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAG-AGAAGGTGC
*
226159 CAATATGCTGATTCAAGGCCAGCGATATTGGACTT----A-AAGGTGC
1 CAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGAGAAGGTGC
* * *
226202 CAATGTGCTGATTCAAGGCCAGCTACATCGGACTTAAAGAAGAAGGTGC
1 CAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAG-AGAAGGTGC
*
226251 CAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAA
1 CAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAA
226289 AGGGTTGCCA
Statistics
Matches: 391, Mismatches: 37, Indels: 55
0.81 0.08 0.11
Matches are distributed among these distances:
42 26 0.07
43 122 0.31
44 7 0.02
46 2 0.01
47 3 0.01
48 11 0.03
49 188 0.48
52 32 0.08
ACGTcount: A:0.32, C:0.18, G:0.25, T:0.25
Consensus pattern (48 bp):
CAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGAGAAGGTGC
Found at i:225961 original size:92 final size:90
Alignment explanation
Indices: 225830--226298 Score: 551
Period size: 92 Copynumber: 5.1 Consensus size: 90
225820 AGATGGAAAT
* * *
225830 GGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTT-A-AAGGTGCCAATGTGCTGATTCA
1 GGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAGAAGGTGCCAATATGCTGATTCA
* *
225893 AGGCCAGCTACATTGGACTTAAAGGTGAA
66 AGGCCAGCGATATTGGACTTAAA----AA
* * * *
225922 GGTGCCAATATGCTGATTCAAGGCCAGCGATATTCGACTTAAAGATAAAGGTGCCAATATGCTGA
1 GGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTT-AAG---AAGGTGCCAATATGCTGA
*
225987 TTCAAGGCCAGCGATATTGGA-TTTAAAA
62 TTCAAGGCCAGCGATATTGGACTTAAAAA
*
226015 -GTGCC-ATGTGCTGATTCAAGGCCAACTACATTGGACTTAAAGAAGAAGGTGCCAATATGCTGA
1 GGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTT----AAGAAGGTGCCAATATGCTGA
*
226078 TTCAAGGCCAGCTATATTGGACTT--AAA
62 TTCAAGGCCAGCGATATTGGACTTAAAAA
*
226105 GGTGCCAATGTGCTGATTCAAGGCCAGTTACATTGGACTTAAAGAAGAAGGTGCCAATATGCTGA
1 GGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTT----AAGAAGGTGCCAATATGCTGA
226170 TTCAAGGCCAGCGATATTGGACTT--AAA
62 TTCAAGGCCAGCGATATTGGACTTAAAAA
*
226197 GGTGCCAATGTGCTGATTCAAGGCCAGCTACATCGGACTTAAAGAAGAAGGTGCCAATATGCTGA
1 GGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTT----AAGAAGGTGCCAATATGCTGA
*
226262 TTCAAGGCCAGCGATATTGGACTTAAAAG
62 TTCAAGGCCAGCGATATTGGACTTAAAAA
226291 GGTTGCCA
1 GG-TGCCA
226299 CCGACTTGTG
Statistics
Matches: 343, Mismatches: 19, Indels: 27
0.88 0.05 0.07
Matches are distributed among these distances:
90 3 0.01
91 71 0.21
92 214 0.62
93 2 0.01
94 8 0.02
95 5 0.01
97 4 0.01
98 36 0.10
ACGTcount: A:0.31, C:0.18, G:0.25, T:0.25
Consensus pattern (90 bp):
GGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAGAAGGTGCCAATATGCTGATTCA
AGGCCAGCGATATTGGACTTAAAAA
Found at i:226195 original size:232 final size:229
Alignment explanation
Indices: 225785--226224 Score: 733
Period size: 232 Copynumber: 1.9 Consensus size: 229
225775 AATGATGTCA
* *
225785 ATGTGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGAAATGGTGCCAATATGCTGATTCA
1 ATGTGCTGATTCAAGGCCAACTACATTGAACTTAAAGATAGAAATGGTGCCAATATGCTGATTCA
225850 AGGCCAGCTATATTGGACTTAAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAA
66 AGGCCAGCTATATTGGACTTAAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAA
**
225915 AGGTGAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTCGACTTAAAGATAAAGGTGCCAAT
131 AGAAGAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTCGAC-T-----TAAAGGTGCCAAT
225980 ATGCTGATTCAAGGCCAGCGATATTGGATTTAAAAGTGCC
190 ATGCTGATTCAAGGCCAGCGATATTGGATTTAAAAGTGCC
*
226020 ATGTGCTGATTCAAGGCCAACTACATTGGACTTAAAGA-AG-AA-GGTGCCAATATGCTGATTCA
1 ATGTGCTGATTCAAGGCCAACTACATTGAACTTAAAGATAGAAATGGTGCCAATATGCTGATTCA
*
226082 AGGCCAGCTATATTGGACTTAAAGGTGCCAATGTGCTGATTCAAGGCCAGTTACATTGGACTTAA
66 AGGCCAGCTATATTGGACTTAAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAA
* *
226147 AGAAGAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGGTGCCAATGTGCTG
131 AGAAGAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTCGACTTAAAGGTGCCAATATGCTG
226212 ATTCAAGGCCAGC
196 ATTCAAGGCCAGC
226225 TACATCGGAC
Statistics
Matches: 197, Mismatches: 8, Indels: 9
0.92 0.04 0.04
Matches are distributed among these distances:
226 31 0.16
231 1 0.01
232 126 0.64
233 2 0.01
234 1 0.01
235 36 0.18
ACGTcount: A:0.31, C:0.18, G:0.25, T:0.25
Consensus pattern (229 bp):
ATGTGCTGATTCAAGGCCAACTACATTGAACTTAAAGATAGAAATGGTGCCAATATGCTGATTCA
AGGCCAGCTATATTGGACTTAAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAA
AGAAGAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTCGACTTAAAGGTGCCAATATGCTG
ATTCAAGGCCAGCGATATTGGATTTAAAAGTGCC
Found at i:226337 original size:32 final size:32
Alignment explanation
Indices: 226291--226455 Score: 258
Period size: 33 Copynumber: 5.1 Consensus size: 32
226281 GACTTAAAAG
*
226291 GGTTGCCACCGACTTGTGTGGGCTTTAGAGGA
1 GGTTGCCACCGACTTGTGTGGGCTTTAGAGAA
* *
226323 GGTTGCCACTGACTTGTGTGGGCTTTGGAGAAA
1 GGTTGCCACCGACTTGTGTGGGCTTTAGAG-AA
* *
226356 GGTTGCCACCGACTTGTGTGGGCTTTGGAAAA
1 GGTTGCCACCGACTTGTGTGGGCTTTAGAGAA
226388 GGGTTGCCACCGACTTGTGTGGGCTTTAGAAGAA
1 -GGTTGCCACCGACTTGTGTGGGCTTTAG-AGAA
226422 GGTTGCCACCGACTTGTGTGGGCTTTAGAGAA
1 GGTTGCCACCGACTTGTGTGGGCTTTAGAGAA
226454 GG
1 GG
226456 ATAAAGATGC
Statistics
Matches: 123, Mismatches: 7, Indels: 6
0.90 0.05 0.04
Matches are distributed among these distances:
32 36 0.29
33 84 0.68
34 3 0.02
ACGTcount: A:0.18, C:0.18, G:0.36, T:0.28
Consensus pattern (32 bp):
GGTTGCCACCGACTTGTGTGGGCTTTAGAGAA
Found at i:226494 original size:98 final size:95
Alignment explanation
Indices: 226279--226504 Score: 269
Period size: 98 Copynumber: 2.3 Consensus size: 95
226269 CCAGCGATAT
* *
226279 TGGACTTAAAAGGGTTGCCACCGACTTGTGTGGGCTTTAGAGGAGGTTGCCACTGACTTGTGTGG
1 TGGACTTAAAAGGGTTGCCACCGACTTGTGTGGGCTTTAGAGAAGGTTGCCACCGACTTGTGTGG
* * *
226344 GCTTTGGAGAAAGGTTGCCACCGACTTGTG
66 GCTTTGGAGAAAAGATGCCACCGACGTGTG
*
226374 TGGGCTTTGGAAAAGGGTTGCCACCGACTTGTGTGGGCTTTAGAAGAAGGTTGCCACCGACTTGT
1 TGGAC-TT--AAAAGGGTTGCCACCGACTTGTGTGGGCTTTAG-AGAAGGTTGCCACCGACTTGT
*
226439 GTGGGCTTTAGAGAAGGATAAAGATGCCACGGA-GT-TG
62 GTGGGCTTT-G-G-A-GA-AAAGATGCCACCGACGTGTG
* *
226476 TGGACTTAAAAGGG-TGCCACGGAATTGTG
1 TGGACTTAAAAGGGTTGCCACCGACTTGTG
226505 GACTTAAAAG
Statistics
Matches: 112, Mismatches: 10, Indels: 15
0.82 0.07 0.11
Matches are distributed among these distances:
95 4 0.04
96 2 0.02
98 46 0.41
99 35 0.31
100 1 0.01
101 3 0.03
102 7 0.06
103 3 0.03
104 11 0.10
ACGTcount: A:0.22, C:0.16, G:0.35, T:0.27
Consensus pattern (95 bp):
TGGACTTAAAAGGGTTGCCACCGACTTGTGTGGGCTTTAGAGAAGGTTGCCACCGACTTGTGTGG
GCTTTGGAGAAAAGATGCCACCGACGTGTG
Found at i:226553 original size:63 final size:61
Alignment explanation
Indices: 226452--226732 Score: 256
Period size: 62 Copynumber: 4.5 Consensus size: 61
226442 GGCTTTAGAG
*
226452 AAGGATAAAGA-TGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAATTGTGGACTTAA
1 AAGGAAAAAGAGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAATTGTGGACTTAA
* * *
226512 AAGGGAAAAAGAGTGCCACAGAGTTGTGGGCTTTAAAAGGGTGCCACGGAATTGTGGACTTAG
1 AA-GGAAAAAGAGTGCCACGGAGTTGTGGAC-TTAAAAGGGTGCCACGGAATTGTGGACTTAA
* * * *
226575 AAGGAAAAAGAGTGCCACGGAGTTGTGGTCTTAGAAGGAAAAAGAGTGCCACGGAGTTGTGGGCT
1 AAGGAAAAAGAGTGCCACGGAGTTGTGGACTT-------AAAAGGGTGCCACGGAATTGTGGACT
226640 T--
59 TAA
* *
226641 ----AAAAAG-GTGCCACGGAGTTGTGGACTTTGATGAGAA-GGTGCCACAGAGTTGTGGACTTA
1 AAGGAAAAAGAGTGCCACGGAGTTGTGGAC-TT-A--A-AAGGGTGCCACGGAATTGTGGACTTA
226700 A
61 A
* * *
226701 AAGGATAAAGAGTGCCACAGAGTCGTGGACTT
1 AAGGAAAAAGAGTGCCACGGAGTTGTGGACTT
226733 GAAGAAAAAA
Statistics
Matches: 183, Mismatches: 17, Indels: 38
0.77 0.07 0.16
Matches are distributed among these distances:
56 1 0.01
58 20 0.11
59 2 0.01
60 2 0.01
61 28 0.15
62 50 0.27
63 32 0.17
64 7 0.04
65 17 0.09
68 24 0.13
ACGTcount: A:0.32, C:0.13, G:0.34, T:0.21
Consensus pattern (61 bp):
AAGGAAAAAGAGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAATTGTGGACTTAA
Found at i:226590 original size:34 final size:34
Alignment explanation
Indices: 226483--226762 Score: 231
Period size: 34 Copynumber: 8.8 Consensus size: 34
226473 TTGTGGACTT
* * *
226483 AAAAGGGTGCCACGGAATTGTGGACTTAAAAGGGA
1 AAAAGAGTGCCACGGAGTTGTGGACTTAGAA-GGA
* * *
226518 AAAAGAGTGCCACAGAGTTGTGGGCTT------T
1 AAAAGAGTGCCACGGAGTTGTGGACTTAGAAGGA
* *
226546 AAAAGGGTGCCACGGAATTGTGGACTTAGAAGGA
1 AAAAGAGTGCCACGGAGTTGTGGACTTAGAAGGA
*
226580 AAAAGAGTGCCACGGAGTTGTGGTCTTAGAAGGA
1 AAAAGAGTGCCACGGAGTTGTGGACTTAGAAGGA
*
226614 AAAAGAGTGCCACGGAGTTGTGGGCTT------A
1 AAAAGAGTGCCACGGAGTTGTGGACTTAGAAGGA
* *
226642 AAAAG-GTGCCACGGAGTTGTGGACTTTG-ATG-
1 AAAAGAGTGCCACGGAGTTGTGGACTTAGAAGGA
* * *
226673 AGAAG-GTGCCACAGAGTTGTGGACTTAAAAGGA
1 AAAAGAGTGCCACGGAGTTGTGGACTTAGAAGGA
* * *
226706 TAAAGAGTGCCACAGAGTCGTGGACTT-GAA-GA
1 AAAAGAGTGCCACGGAGTTGTGGACTTAGAAGGA
* *
226738 AAAA-A-TGCCACTGAGTCGTGGACTT
1 AAAAGAGTGCCACGGAGTTGTGGACTT
226763 TGGAAAGAGA
Statistics
Matches: 205, Mismatches: 26, Indels: 33
0.78 0.10 0.12
Matches are distributed among these distances:
27 20 0.10
28 29 0.14
30 19 0.09
31 25 0.12
32 7 0.03
33 5 0.02
34 77 0.38
35 23 0.11
ACGTcount: A:0.33, C:0.14, G:0.33, T:0.21
Consensus pattern (34 bp):
AAAAGAGTGCCACGGAGTTGTGGACTTAGAAGGA
Found at i:226661 original size:61 final size:59
Alignment explanation
Indices: 226579--226815 Score: 180
Period size: 64 Copynumber: 3.9 Consensus size: 59
226569 ACTTAGAAGG
* * *
226579 AAAAAGAGTGCCACGGAGTTGTGGTCTTAGAAGGAAAAAGAGTGCCACGGAGTTGTGGGCTT
1 AAAAAGAGTGCCACGGAGTTGTGGACTTAG-AGG-AAAAG-GTGCCACAGAGTTGTGGACTT
* * *
226641 AAAAAG-GTGCCACGGAGTTGTGGACTTTGATGAGAAGGTGCCACAGAGTTGTGGACTT
1 AAAAAGAGTGCCACGGAGTTGTGGACTTAGAGGAAAAGGTGCCACAGAGTTGTGGACTT
* * * ** * *
226699 AAAAGGATAAAGAGTGCCACAGAGTCGTGGACTT-GAAGAAAAAATGCCACTGAGTCGTGGACTT
1 ---A--A-AAAGAGTGCCACGGAGTTGTGGACTTAGAGGAAAAGGTGCCACAGAGTTGTGGAC-T
226763 T
59 T
** * *
226764 GGAAAGAGATGCCACTGAGTTGTGGGCTT----GAAAAGGTGCCACAGAGTTGTGG
1 AAAAAGAG-TGCCACGGAGTTGTGGACTTAGAGGAAAAGGTGCCACAGAGTTGTGG
226816 GCTTTGAGAC
Statistics
Matches: 143, Mismatches: 23, Indels: 23
0.76 0.12 0.12
Matches are distributed among these distances:
57 19 0.13
58 19 0.13
59 10 0.07
60 19 0.13
61 22 0.15
62 6 0.04
63 1 0.01
64 26 0.18
65 21 0.15
ACGTcount: A:0.31, C:0.14, G:0.34, T:0.22
Consensus pattern (59 bp):
AAAAAGAGTGCCACGGAGTTGTGGACTTAGAGGAAAAGGTGCCACAGAGTTGTGGACTT
Found at i:226754 original size:30 final size:30
Alignment explanation
Indices: 226713--226886 Score: 142
Period size: 30 Copynumber: 5.9 Consensus size: 30
226703 GGATAAAGAG
*
226713 TGCCACAGAGTCGTGGAC-TTGAAGAAAAAA
1 TGCCACTGAGTCGTGGACTTTG-AGAAAAAA
*
226743 TGCCACTGAGTCGTGGACTTTG-GAAAGAGA
1 TGCCACTGAGTCGTGGACTTTGAGAAA-AAA
* * **
226773 TGCCACTGAGTTGTGGGC-TT--GAAAAGG
1 TGCCACTGAGTCGTGGACTTTGAGAAAAAA
* * * *
226800 TGCCACAGAGTTGTGGGCTTTGAGACAAAA
1 TGCCACTGAGTCGTGGACTTTGAGAAAAAA
* * * * *
226830 TGCCACTGAGTCATGGGCATTGAGAAGAGAT
1 TGCCACTGAGTCGTGGACTTTGAGAA-AAAA
*
226861 TGCCACTGAGTCGTGGACTTTAAGAA
1 TGCCACTGAGTCGTGGACTTTGAGAA
226887 GGTATTTGAC
Statistics
Matches: 118, Mismatches: 20, Indels: 11
0.79 0.13 0.07
Matches are distributed among these distances:
27 19 0.16
28 6 0.05
29 6 0.05
30 60 0.51
31 27 0.23
ACGTcount: A:0.29, C:0.17, G:0.31, T:0.23
Consensus pattern (30 bp):
TGCCACTGAGTCGTGGACTTTGAGAAAAAA
Found at i:226858 original size:87 final size:89
Alignment explanation
Indices: 226707--226876 Score: 231
Period size: 87 Copynumber: 1.9 Consensus size: 89
226697 TTAAAAGGAT
* *
226707 AAAGAGTGCCACAGAGTCGTGGACTTGAAGAAAAAATGCCACTGAGTCGTGGACTTTGGAAAGAG
1 AAAGAGTGCCACAGAGTCGTGGACTTGAAGAAAAAATGCCACTGAGTCATGGACATTGGAAAGAG
*
226772 A-TGCCACTGAGTTGTGGGCTTGA
66 ATTGCCACTGAGTCGTGGGCTTGA
* * * *
226795 AAAG-GTGCCACAGAGTTGTGGGCTTTG-AGACAAAATGCCACTGAGTCATGGGCATT-GAGAAG
1 AAAGAGTGCCACAGAGTCGTGGAC-TTGAAGAAAAAATGCCACTGAGTCATGGACATTGGA-AAG
226857 AGATTGCCACTGAGTCGTGG
64 AGATTGCCACTGAGTCGTGG
226877 ACTTTAAGAA
Statistics
Matches: 72, Mismatches: 7, Indels: 6
0.85 0.08 0.07
Matches are distributed among these distances:
86 2 0.03
87 48 0.67
88 22 0.31
ACGTcount: A:0.29, C:0.16, G:0.32, T:0.22
Consensus pattern (89 bp):
AAAGAGTGCCACAGAGTCGTGGACTTGAAGAAAAAATGCCACTGAGTCATGGACATTGGAAAGAG
ATTGCCACTGAGTCGTGGGCTTGA
Found at i:228232 original size:29 final size:27
Alignment explanation
Indices: 228177--228234 Score: 73
Period size: 29 Copynumber: 2.1 Consensus size: 27
228167 TTTGTGTGTG
*
228177 TTTTTTGTTTTGTTTGTTTTTTGACTT
1 TTTTTTGTTTTGTTTGTTGTTTGACTT
228204 TTTTTTGACTTTTGTTTGTGTGTTT-ACTT
1 TTTTTTG--TTTTGTTTGT-TGTTTGACTT
228233 TT
1 TT
228235 GACTGTTCCG
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
27 7 0.26
29 16 0.59
30 4 0.15
ACGTcount: A:0.05, C:0.05, G:0.16, T:0.74
Consensus pattern (27 bp):
TTTTTTGTTTTGTTTGTTGTTTGACTT
Found at i:235214 original size:52 final size:52
Alignment explanation
Indices: 235129--235253 Score: 214
Period size: 52 Copynumber: 2.4 Consensus size: 52
235119 ATATGAAAAG
* *
235129 TTGCTTGCATGTATCGATACATTTAATAGTGTATCGATACATCTCGGCAAAT
1 TTGCCTGCATGTATCGATACATTTAATAATGTATCGATACATCTCGGCAAAT
* *
235181 TTGCCTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGCAAAT
1 TTGCCTGCATGTATCGATACATTTAATAATGTATCGATACATCTCGGCAAAT
235233 TTGCCTGCATGTATCGATACA
1 TTGCCTGCATGTATCGATACA
235254 AAGATCAATG
Statistics
Matches: 69, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
52 69 1.00
ACGTcount: A:0.28, C:0.18, G:0.18, T:0.36
Consensus pattern (52 bp):
TTGCCTGCATGTATCGATACATTTAATAATGTATCGATACATCTCGGCAAAT
Found at i:235264 original size:52 final size:52
Alignment explanation
Indices: 235129--235273 Score: 195
Period size: 52 Copynumber: 2.8 Consensus size: 52
235119 ATATGAAAAG
* * *
235129 TTGCTTGCATGTATCGATACATTTA-ATAGTGTATCGATACATCTCGGCAAAT
1 TTGCCTGCATGTATCGATACA-TAAGATAATGTATCGATACATCTCGGCAAAT
*** *
235181 TTGCCTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGCAAAT
1 TTGCCTGCATGTATCGATACATAAGATAATGTATCGATACATCTCGGCAAAT
235233 TTGCCTGCATGTATCGATACA-AAGATCAATGTATCGATACA
1 TTGCCTGCATGTATCGATACATAAGAT-AATGTATCGATACA
235274 ATGTATCGAT
Statistics
Matches: 84, Mismatches: 7, Indels: 4
0.88 0.07 0.04
Matches are distributed among these distances:
51 4 0.05
52 80 0.95
ACGTcount: A:0.30, C:0.18, G:0.17, T:0.34
Consensus pattern (52 bp):
TTGCCTGCATGTATCGATACATAAGATAATGTATCGATACATCTCGGCAAAT
Found at i:235277 original size:13 final size:13
Alignment explanation
Indices: 235259--235286 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
235249 ATACAAAGAT
235259 CAATGTATCGATA
1 CAATGTATCGATA
235272 CAATGTATCGATA
1 CAATGTATCGATA
235285 CA
1 CA
235287 TTTTTTGGCA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.39, C:0.18, G:0.14, T:0.29
Consensus pattern (13 bp):
CAATGTATCGATA
Found at i:235347 original size:13 final size:13
Alignment explanation
Indices: 235329--235353 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
235319 AAAAAAAATA
235329 TGTATCGATACAT
1 TGTATCGATACAT
235342 TGTATCGATACA
1 TGTATCGATACA
235354 GCACTTTATG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:244412 original size:11 final size:12
Alignment explanation
Indices: 244396--244445 Score: 59
Period size: 12 Copynumber: 4.2 Consensus size: 12
244386 TTTCACTCTA
244396 TTTCT-TCCTTT
1 TTTCTCTCCTTT
* *
244407 TTTCTTTCTTTT
1 TTTCTCTCCTTT
244419 CTTTCTCT-CTTT
1 -TTTCTCTCCTTT
244431 TTTCTCTCCTTT
1 TTTCTCTCCTTT
244443 TTT
1 TTT
244446 TCAACTAAAC
Statistics
Matches: 33, Mismatches: 3, Indels: 5
0.80 0.07 0.12
Matches are distributed among these distances:
11 12 0.36
12 15 0.45
13 6 0.18
ACGTcount: A:0.00, C:0.26, G:0.00, T:0.74
Consensus pattern (12 bp):
TTTCTCTCCTTT
Found at i:244429 original size:13 final size:12
Alignment explanation
Indices: 244404--244447 Score: 54
Period size: 13 Copynumber: 3.6 Consensus size: 12
244394 TATTTCTTCC
*
244404 TTTTTTCTTTCT
1 TTTTTTCTCTCT
244416 TTTCTTTCTCTC-
1 TTT-TTTCTCTCT
244428 TTTTTTCTCTCCT
1 TTTTTTCTCT-CT
244441 TTTTTTC
1 TTTTTTC
244448 AACTAAACTA
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
11 7 0.25
12 7 0.25
13 14 0.50
ACGTcount: A:0.00, C:0.25, G:0.00, T:0.75
Consensus pattern (12 bp):
TTTTTTCTCTCT
Found at i:249243 original size:31 final size:31
Alignment explanation
Indices: 249174--249520 Score: 209
Period size: 31 Copynumber: 10.8 Consensus size: 31
249164 TCAAACTTTT
* * *
249174 TTTACAGTCCACACAAGTTGTTGGAAACC-T-
1 TTTAAAGTCCACACAAGTTGGTGG-CACCATA
* *
249204 TTCCAAAGTCCACACGAGTTGGTGGCACCATA
1 TT-TAAAGTCCACACAAGTTGGTGGCACCATA
* * ** *
249236 GTTAAAGTCCATACAAGTTGGTGTTACCCTA
1 TTTAAAGTCCACACAAGTTGGTGGCACCATA
* * * *
249267 TTCAAAGTCCACATAAGTCGGTGGCAACCAAA
1 TTTAAAGTCCACACAAGTTGGTGGC-ACCATA
* * **
249299 CCTTTTCAAAGTCCACACGAGCTAATGGCACCATA
1 ---TTT-AAAGTCCACACAAGTTGGTGGCACCATA
* * **
249334 GTTAAAGTCCACACAAGTTAGTGGCACCCCA
1 TTTAAAGTCCACACAAGTTGGTGGCACCATA
* ** *
249365 TTCAAAGTCCACACAAGTTTATGGCAACCAAACCTT
1 TTTAAAGTCCACACAAGTTGGTGGC-ACC--A--TA
*
249401 TTATAAAGTCTACACAAGTTGGTGGCAACC-T-
1 TT-TAAAGTCCACACAAGTTGGTGGC-ACCATA
* *
249432 TTTCAAAGTCCACTCGAA-TGGGTGGCACCATA
1 TTT-AAAGTCCACAC-AAGTTGGTGGCACCATA
* * * * *
249464 GTTAAAATCCACACGAGTTGATGGCACCCTA
1 TTTAAAGTCCACACAAGTTGGTGGCACCATA
249495 TTTAAAGTCCACACAAGTTGGTGGCA
1 TTTAAAGTCCACACAAGTTGGTGGCA
249521 AGCCAACCCT
Statistics
Matches: 238, Mismatches: 60, Indels: 37
0.71 0.18 0.11
Matches are distributed among these distances:
30 10 0.04
31 165 0.69
32 15 0.06
35 7 0.03
36 18 0.08
37 23 0.10
ACGTcount: A:0.32, C:0.25, G:0.18, T:0.25
Consensus pattern (31 bp):
TTTAAAGTCCACACAAGTTGGTGGCACCATA
Found at i:249368 original size:98 final size:98
Alignment explanation
Indices: 249198--249402 Score: 293
Period size: 98 Copynumber: 2.1 Consensus size: 98
249188 AAGTTGTTGG
* * ** * * **
249198 AAACCTTTCCAAAGTCCACACGAGTTGGTGGCACCATAGTTAAAGTCCATACAAGTTGGTGTTAC
1 AAACCTTTTCAAAGTCCACACGAGCTAATGGCACCATAGTTAAAGTCCACACAAGTTAGTGGCAC
* * *
249263 CCTATTCAAAGTCCACATAAGTCGGTGGCAACC
66 CCCATTCAAAGTCCACACAAGTCGATGGCAACC
249296 AAACCTTTTCAAAGTCCACACGAGCTAATGGCACCATAGTTAAAGTCCACACAAGTTAGTGGCAC
1 AAACCTTTTCAAAGTCCACACGAGCTAATGGCACCATAGTTAAAGTCCACACAAGTTAGTGGCAC
**
249361 CCCATTCAAAGTCCACACAAGTTTATGGCAACC
66 CCCATTCAAAGTCCACACAAGTCGATGGCAACC
249394 AAACCTTTT
1 AAACCTTTT
249403 ATAAAGTCTA
Statistics
Matches: 94, Mismatches: 13, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
98 94 1.00
ACGTcount: A:0.33, C:0.27, G:0.17, T:0.24
Consensus pattern (98 bp):
AAACCTTTTCAAAGTCCACACGAGCTAATGGCACCATAGTTAAAGTCCACACAAGTTAGTGGCAC
CCCATTCAAAGTCCACACAAGTCGATGGCAACC
Found at i:249469 original size:130 final size:131
Alignment explanation
Indices: 249297--249533 Score: 336
Period size: 130 Copynumber: 1.8 Consensus size: 131
249287 GTGGCAACCA
* *
249297 AACCTTTTCAAAGTCCACACGAGCTAATGGCACCATAGTTAAAGTCCACACAAGTT-AGTGGCAC
1 AACCTTTTCAAAGTCCACACGAGATAATGGCACCATAGTTAAAATCCACACAAGTTGA-TGGCAC
*
249361 CCCATTCAAAGTCCACACAAGTTTATGGCAA-CCAAACCTTTTATAAAGTCTACACAAGTTGGTG
65 CCCATTCAAAGTCCACACAAGTTGATGGCAAGCCAAACCTTTTATAAAGTCTACACAAGTTGGTG
249425 GC
130 GC
* ** *
249427 AACCTTTTCAAAGTCCACTCGA-ATGGGTGGCACCATAGTTAAAATCCACACGAGTTGATGGCAC
1 AACCTTTTCAAAGTCCACACGAGAT-AATGGCACCATAGTTAAAATCCACACAAGTTGATGGCAC
* * * *
249491 CCTATTTAAAGTCCACACAAGTTGGTGGCAAGCCAACCCTTTT
65 CCCATTCAAAGTCCACACAAGTTGATGGCAAGCCAAACCTTTT
249534 CAAAGCCCAT
Statistics
Matches: 93, Mismatches: 11, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
129 1 0.01
130 81 0.87
131 11 0.12
ACGTcount: A:0.32, C:0.26, G:0.17, T:0.24
Consensus pattern (131 bp):
AACCTTTTCAAAGTCCACACGAGATAATGGCACCATAGTTAAAATCCACACAAGTTGATGGCACC
CCATTCAAAGTCCACACAAGTTGATGGCAAGCCAAACCTTTTATAAAGTCTACACAAGTTGGTGG
C
Found at i:249569 original size:28 final size:28
Alignment explanation
Indices: 249526--249622 Score: 140
Period size: 28 Copynumber: 3.4 Consensus size: 28
249516 TGGCAAGCCA
* *
249526 ACCCTTTTCAAAGCCCATAAGTTAGTGGC
1 ACCC-TTTCAAAGCCCACAAGTCAGTGGC
*
249555 ACCCTTTCAAGGCCCACAAGTCAGTGGC
1 ACCCTTTCAAAGCCCACAAGTCAGTGGC
* *
249583 ACCATTTCAAAGCCCACAAGTCAATGGC
1 ACCCTTTCAAAGCCCACAAGTCAGTGGC
249611 ACCCTTTCAAAG
1 ACCCTTTCAAAG
249623 TTGTCGCAAT
Statistics
Matches: 61, Mismatches: 7, Indels: 1
0.88 0.10 0.01
Matches are distributed among these distances:
28 57 0.93
29 4 0.07
ACGTcount: A:0.30, C:0.32, G:0.16, T:0.22
Consensus pattern (28 bp):
ACCCTTTCAAAGCCCACAAGTCAGTGGC
Found at i:252728 original size:58 final size:59
Alignment explanation
Indices: 252639--252752 Score: 160
Period size: 58 Copynumber: 1.9 Consensus size: 59
252629 ATGCAATGCA
* * * *
252639 ATGCATGGCGTGAAAAATGAAGCAAAGTATGCATGAAATGTAGTGCATGAAATGAACAT
1 ATGCATGGCATGAAAAATGAAGCAAAATATGCATGAAATGCAATGCATGAAATGAACAT
*
252698 ATGCAT-GCATGAAACATGAAAG-AAAATATGCATGAAATGCAATGCATGAAATGAA
1 ATGCATGGCATGAAAAATG-AAGCAAAATATGCATGAAATGCAATGCATGAAATGAA
252753 TTTATGGCAT
Statistics
Matches: 49, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
58 40 0.82
59 9 0.18
ACGTcount: A:0.46, C:0.11, G:0.23, T:0.21
Consensus pattern (59 bp):
ATGCATGGCATGAAAAATGAAGCAAAATATGCATGAAATGCAATGCATGAAATGAACAT
Found at i:252934 original size:21 final size:23
Alignment explanation
Indices: 252885--252940 Score: 66
Period size: 21 Copynumber: 2.6 Consensus size: 23
252875 TAATTTGTTA
*
252885 TTATTATTTTATGTATATATATT
1 TTATTATTTAATGTATATATATT
*
252908 TT-TTATTTAAT-TATTTAT-TT
1 TTATTATTTAATGTATATATATT
252928 TTATTA-TTAATGT
1 TTATTATTTAATGT
252941 CAAATAAACC
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
20 9 0.31
21 10 0.34
22 8 0.28
23 2 0.07
ACGTcount: A:0.29, C:0.00, G:0.04, T:0.68
Consensus pattern (23 bp):
TTATTATTTAATGTATATATATT
Found at i:253554 original size:42 final size:42
Alignment explanation
Indices: 253483--254362 Score: 653
Period size: 42 Copynumber: 21.0 Consensus size: 42
253473 TAATAGGAAA
* *
253483 ACTTGAAGGTAAGGAAGTCTCCAAGGTCAAAGCCGACAGGTAG
1 ACTTG-AGGTGAGGAAGTCTCCAAGGTCAAAGCCGACAGGCAG
* *
253526 ACTTGAGGTGAGGTAGTCTCCAAGGTCAAAGCCGACAGGTAG
1 ACTTGAGGTGAGGAAGTCTCCAAGGTCAAAGCCGACAGGCAG
* * * *
253568 ACTTGAGGTAAGGTAGTCTCCAAGGTCAAAGTCGACAGGTAG
1 ACTTGAGGTGAGGAAGTCTCCAAGGTCAAAGCCGACAGGCAG
* * *
253610 ACTT-AGGGTAAGAAAGTCTCCAAGGTCAAAGCCGATAGGCAG
1 ACTTGA-GGTGAGGAAGTCTCCAAGGTCAAAGCCGACAGGCAG
* * *
253652 AC-TGAAGGT-AGGAAAGTCTCTAAGGTCAAAGTCGACAAGCAG
1 ACTTG-AGGTGAGG-AAGTCTCCAAGGTCAAAGCCGACAGGCAG
* * * * *
253694 ACTTGAGGTGAGGTAGTCTCTAA-GCCAAAGCCGATAGGCAA
1 ACTTGAGGTGAGGAAGTCTCCAAGGTCAAAGCCGACAGGCAG
* * * * * *
253735 AC-TGAAGGTAAGAAAATCT-CTAGAGTCGAAGCCGATAGGCAG
1 ACTTG-AGGTGAGGAAGTCTCCAAG-GTCAAAGCCGACAGGCAG
* * * *
253777 ACTTGAGGTGAGGCAA-TCTCTAGGGTCAAAGCCAACAGGTAG
1 ACTTGAGGTGAGG-AAGTCTCCAAGGTCAAAGCCGACAGGCAG
* * * *
253819 ACATGAGGTAAGGCAGTCT-CAAGGGTCAACGCCGACAGGCAG
1 ACTTGAGGTGAGGAAGTCTCCAA-GGTCAAAGCCGACAGGCAG
* * * *
253861 AC-TGAGG-GTAGGAAAATCTCCAAGGTCAAAGCCAATAGGCAT
1 ACTTGAGGTG-AGG-AAGTCTCCAAGGTCAAAGCCGACAGGCAG
** * * *
253903 ACTTGAGGTGAGCCAGTCTCCAATGTCAAAGCTGACAGGTAG
1 ACTTGAGGTGAGGAAGTCTCCAAGGTCAAAGCCGACAGGCAG
* * *
253945 ACTCG-GGTTG-GAAAGTCTCCAGGGTCAAAGCCGACAGGCAG
1 ACTTGAGG-TGAGGAAGTCTCCAAGGTCAAAGCCGACAGGCAG
* * * *
253986 ACTTGTGGTGAGGTAGTCTCCAAGGTCAAAGTCGACAGGTAG
1 ACTTGAGGTGAGGAAGTCTCCAAGGTCAAAGCCGACAGGCAG
* * * *
254028 AC-TAAGG-GTAGGAAAGTCTTCAAGGTCAAAGCCGATAGGCAC
1 ACTTGAGGTG-AGG-AAGTCTCCAAGGTCAAAGCCGACAGGCAG
* * * *
254070 ACTTGAGCTGAAGCAGTCTCCAAGGTCAAAGCTGACAGGCAG
1 ACTTGAGGTGAGGAAGTCTCCAAGGTCAAAGCCGACAGGCAG
* * * **
254112 AC-TGAGG-GTAGGAAAGTCTCTAGGGTCAAAGTCGACAAACAG
1 ACTTGAGGTG-AGG-AAGTCTCCAAGGTCAAAGCCGACAGGCAG
* * * * *
254154 ACTTGAGCTGTGGCAGTCTCCAAGGTCAAAGTCGATAGGCAG
1 ACTTGAGGTGAGGAAGTCTCCAAGGTCAAAGCCGACAGGCAG
* * * * * *
254196 A-TTGAGGGTAAGAAAGTCTCTAGGGTCAAAGCCAATAGGCAG
1 ACTTGA-GGTGAGGAAGTCTCCAAGGTCAAAGCCGACAGGCAG
* * * * *
254238 ACTTGAGATAAGGTAGTCTCCAAGGTCAAAGCCGACAAGTAG
1 ACTTGAGGTGAGGAAGTCTCCAAGGTCAAAGCCGACAGGCAG
* * * * * * * * *
254280 AC-TAAGGGTAAGAAAATCTCTAGGGTTAAAACCGATAGGCAG
1 ACTTGA-GGTGAGGAAGTCTCCAAGGTCAAAGCCGACAGGCAG
* * * * *
254322 ACTTGAGGTGAGGTAGTCTCTAGGGTCAAAGCTGATAGGCA
1 ACTTGAGGTGAGGAAGTCTCCAAGGTCAAAGCCGACAGGCA
254363 AGGTCAAAGC
Statistics
Matches: 657, Mismatches: 146, Indels: 69
0.75 0.17 0.08
Matches are distributed among these distances:
40 5 0.01
41 90 0.14
42 516 0.79
43 43 0.07
44 3 0.00
ACGTcount: A:0.33, C:0.19, G:0.30, T:0.18
Consensus pattern (42 bp):
ACTTGAGGTGAGGAAGTCTCCAAGGTCAAAGCCGACAGGCAG
Found at i:253933 original size:251 final size:252
Alignment explanation
Indices: 253475--254274 Score: 644
Period size: 251 Copynumber: 3.2 Consensus size: 252
253465 GTCAAAGCTA
* * * *
253475 ATAGGAAAACTTGAAGGTAAGGAAGTCTCCAAGGTCAAAGCCGACAGGTAGACTTGAGGTGAGGT
1 ATAGGAAAACTTGAAGGTAAGAAAATCTCCAAGGTCAAAGCCGACAGGCAGACTTGAGGTGAGGC
* * * * *
253540 AGTCTCCAAGGTCAAAGCCGACAGGTAGACTTGAGGTAAGGTAGTCTCCAAGGTCAAAGTCGACA
66 AATCTCCAAGGTCAAAGCCAACAGGTAGACATGAGGTAAGGCAGTCTCCAAGGTCAAAGCCGACA
* * * *
253605 GGTAGACTTAGGGTAAGAAAGTCTCCAAGGTCAAAGCCGATAGGCAGACTGAAGGTAGGAAAGTC
131 GGCAGACTGAGGGTAAGAAAATCTCCAAGGTCAAAGCCAATAGGCAGACTGAAGGTAGGAAAGTC
*
253670 TCTAAGGTCAAAGTCGACAAGCAGACTTGAGGTGAGGTAGTCTCTAAGCCAAAGCCG
196 TCCAAGGTCAAAGTCGACAAGCAGACTTGAGGTGAGGTAGTCTCTAAGCCAAAGCCG
* * * *
253727 ATAGGCAAAC-TGAAGGTAAGAAAATCT-CTAGAGTCGAAGCCGATAGGCAGACTTGAGGTGAGG
1 ATAGGAAAACTTGAAGGTAAGAAAATCTCCAAG-GTCAAAGCCGACAGGCAGACTTGAGGTGAGG
* * *
253790 CAATCTCTAGGGTCAAAGCCAACAGGTAGACATGAGGTAAGGCAGTCT-CAAGGGTCAACGCCGA
65 CAATCTCCAAGGTCAAAGCCAACAGGTAGACATGAGGTAAGGCAGTCTCCAA-GGTCAAAGCCGA
* * **
253854 CAGGCAGACTGAGGGTAGGAAAATCTCCAAGGTCAAAGCCAATAGGCATACTTG-AGGT-GAGCC
129 CAGGCAGACTGAGGGTAAGAAAATCTCCAAGGTCAAAGCCAATAGGCAGAC-TGAAGGTAG-GAA
* * * * ** * * *
253917 AGTCTCCAATGTCAAAG-CTGACAGGTAGACTCG-GGTTG-GAAAGTCTCCAGGGTCAAAGCCG
192 AGTCTCCAAGGTCAAAGTC-GACAAGCAGACTTGAGG-TGAGGTAGTCTCTA-AGCCAAAGCCG
* * * * * ** * * * *
253978 ACAGGCAGACTTG-TGGTGAGGTAGTCTCCAAGGTCAAAGTCGACAGGTAGAC-TAAGG-GTAGG
1 ATAGGAAAACTTGAAGGTAAGAAAATCTCCAAGGTCAAAGCCGACAGGCAGACTTGAGGTG-AGG
* * * * * * * * *
254040 AAAGTCTTCAAGGTCAAAGCCGATAGGCACACTTGAGCTGAA-GCAGTCTCCAAGGTCAAAGCTG
65 CAA-TCTCCAAGGTCAAAGCCAACAGGTAGACATGAGGT-AAGGCAGTCTCCAAGGTCAAAGCCG
* * * * * * * **
254104 ACAGGCAGACTGAGGGTAGGAAAGTCTCTAGGGTCAAAGTCGACAAACAGACTTG-AGCTGT-GG
128 ACAGGCAGACTGAGGGTAAGAAAATCTCCAAGGTCAAAGCCAATAGGCAGAC-TGAAG--GTAGG
* * * * ** * * *
254167 -CAGTCTCCAAGGTCAAAGTCGATAGGCAGA-TTGAGGGTAAGAAAGTCTCTAGGGTCAAAGCCA
190 AAAGTCTCCAAGGTCAAAGTCGACAAGCAGACTTGA-GGTGAGGTAGTCTCTA-AGCCAAAGCCG
* * * ** *
254230 ATAGGCAGACTTG-AGATAAGGTAGTCTCCAAGGTCAAAGCCGACA
1 ATAGGAAAACTTGAAGGTAAGAAAATCTCCAAGGTCAAAGCCGACA
254275 AGTAGACTAA
Statistics
Matches: 449, Mismatches: 80, Indels: 38
0.79 0.14 0.07
Matches are distributed among these distances:
249 1 0.00
250 29 0.06
251 330 0.73
252 86 0.19
253 3 0.01
ACGTcount: A:0.33, C:0.19, G:0.30, T:0.18
Consensus pattern (252 bp):
ATAGGAAAACTTGAAGGTAAGAAAATCTCCAAGGTCAAAGCCGACAGGCAGACTTGAGGTGAGGC
AATCTCCAAGGTCAAAGCCAACAGGTAGACATGAGGTAAGGCAGTCTCCAAGGTCAAAGCCGACA
GGCAGACTGAGGGTAAGAAAATCTCCAAGGTCAAAGCCAATAGGCAGACTGAAGGTAGGAAAGTC
TCCAAGGTCAAAGTCGACAAGCAGACTTGAGGTGAGGTAGTCTCTAAGCCAAAGCCG
Found at i:254369 original size:19 final size:19
Alignment explanation
Indices: 254345--254382 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
254335 TAGTCTCTAG
*
254345 GGTCAAAGCTGATAGGCAA
1 GGTCAAAGCCGATAGGCAA
254364 GGTCAAAGCCGATAGGCAA
1 GGTCAAAGCCGATAGGCAA
254383 ACTGATGGAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.37, C:0.18, G:0.32, T:0.13
Consensus pattern (19 bp):
GGTCAAAGCCGATAGGCAA
Found at i:254425 original size:42 final size:41
Alignment explanation
Indices: 254364--255069 Score: 371
Period size: 42 Copynumber: 16.8 Consensus size: 41
254354 TGATAGGCAA
* * * *
254364 GGTCAAAGCCGATAGGCAAACTGATGGAAAAAAAGTCTCTAG
1 GGTCAAAGCCGACAAGCAAACTGA-GGTAAGAAAGTCTCTAG
* * *
254406 GGTCAAAACCGACAAGCAAATTGAAGGTAGGAAAGTCTCTAG
1 GGTCAAAGCCGACAAGCAAACTG-AGGTAAGAAAGTCTCTAG
* * * * ** * *
254448 GGTCAAAGCCGATAGGCACACTTGAGCTAAGGTAGTCTCAAA
1 GGTCAAAGCCGACAAGCAAAC-TGAGGTAAGAAAGTCTCTAG
**
254490 GGTCAAAGCCGACAAGCAAACTGAGGGTTGGAAAGTCTCTAG
1 GGTCAAAGCCGACAAGCAAACTGA-GGTAAGAAAGTCTCTAG
* * * * ** * *
254532 GGTCAAAGCCGAC-GGACAGACTTGAGCTATGGTAGTCTCCAA
1 GGTCAAAGCCGACAAG-CAAAC-TGAGGTAAGAAAGTCTCTAG
* * *
254574 GGTCAAAGCCGATAGGCAAACTAAGGGTAAGAAAGTCTCTAG
1 GGTCAAAGCCGACAAGCAAACTGA-GGTAAGAAAGTCTCTAG
* * * * * * ** * *
254616 GGTCAAAGCCAATAGGCATACTTGAGATGAGGCAGTCTCCAA
1 GGTCAAAGCCGACAAGCAAAC-TGAGGTAAGAAAGTCTCTAG
* * * *
254658 GGTCAAAGCTGACAAGGAGACTGAGGGTAAGAAAGTCTCTAA
1 GGTCAAAGCCGACAAGCAAACTGA-GGTAAGAAAGTCTCTAG
* * * * * **
254700 GGTCAAAACCAATAGGCAAACTTGAGGTGAGGTAGTCTCTAG
1 GGTCAAAGCCGACAAGCAAAC-TGAGGTAAGAAAGTCTCTAG
* * * * *
254742 GGTCAAAGCAGATAGGCAGACT-AGGGTAGGAAAGTCTCTAG
1 GGTCAAAGCCGACAAGCAAACTGA-GGTAAGAAAGTCTCTAG
* * *
254783 GGTCAAAGCCGACAGGCAGACTGAGGGTAAGAAAGTCT-TCG
1 GGTCAAAGCCGACAAGCAAACTGA-GGTAAGAAAGTCTCTAG
* * * * * * **
254824 AAGTCAAAGCCGACAGGCAGACTTAAGCTGAGGCAGTCTCTAG
1 -GGTCAAAGCCGACAAGCAAAC-TGAGGTAAGAAAGTCTCTAG
* * * * *
254867 GGTCAAAGCCGATAAGCAGACTAAAGCTAAGAAAGTCT-TCAA
1 GGTCAAAGCCGACAAGCAAACT-GAGGTAAGAAAGTCTCT-AG
* * * *
254909 GGTCAAAGCCGACAAGCAGACTTGAGATGAGACAA-TCTTTAG
1 GGTCAAAGCCGACAAGCAAAC-TGAGGTAAGA-AAGTCTCTAG
* * * * * *
254951 GGTCAAAGCTGACAGGTAGACTGAGGGTAAAAAAGTCATC-AA
1 GGTCAAAGCCGACAAGCAAACTGA-GGTAAGAAAGTC-TCTAG
* * * * *
254993 GGTCAAAGCTGACAGGCAGACTTAAGGGTAAAAAAGTCTCTAG
1 GGTCAAAGCCGACAAGCAAAC-TGA-GGTAAGAAAGTCTCTAG
* * *
255036 GGTCAAAGCTGACAAGTAGACTTGAGGTAAGAAA
1 GGTCAAAGCCGACAAGCAAAC-TGAGGTAAGAAA
255070 AATTCAAATG
Statistics
Matches: 516, Mismatches: 123, Indels: 50
0.75 0.18 0.07
Matches are distributed among these distances:
40 1 0.00
41 52 0.10
42 403 0.78
43 60 0.12
ACGTcount: A:0.36, C:0.18, G:0.28, T:0.18
Consensus pattern (41 bp):
GGTCAAAGCCGACAAGCAAACTGAGGTAAGAAAGTCTCTAG
Found at i:254505 original size:84 final size:83
Alignment explanation
Indices: 254397--255044 Score: 493
Period size: 84 Copynumber: 7.7 Consensus size: 83
254387 ATGGAAAAAA
* * * *
254397 AGTCTCTAGGGTCAAAACCGACAAGCAAATTGAAGGTAGGAAAGTCTCTAGGGTCAAAGCCGATA
1 AGTCTCCAAGGTCAAAGCCGACAAGCAAACT-AAGGTAGGAAAGTCTCTAGGGTCAAAGCCGATA
*
254462 GGCACACTTGAGCTAAGGT
65 GGCAGACTTGAGCTAAGGT
* * * *
254481 AGTCTCAAAGGTCAAAGCCGACAAGCAAACTGAGGGTTGGAAAGTCTCTAGGGTCAAAGCCGA-C
1 AGTCTCCAAGGTCAAAGCCGACAAGCAAACT-AAGGTAGGAAAGTCTCTAGGGTCAAAGCCGATA
*
254545 GGACAGACTTGAGCTATGGT
65 GG-CAGACTTGAGCTAAGGT
* * * *
254565 AGTCTCCAAGGTCAAAGCCGATAGGCAAACTAAGGGTAAGAAAGTCTCTAGGGTCAAAGCCAATA
1 AGTCTCCAAGGTCAAAGCCGACAAGCAAACTAA-GGTAGGAAAGTCTCTAGGGTCAAAGCCGATA
* * * *
254630 GGCATACTTGAGATGAGGC
65 GGCAGACTTGAGCTAAGGT
* * * * * * * *
254649 AGTCTCCAAGGTCAAAGCTGACAAGGAGACTGAGGGTAAGAAAGTCTCTAAGGTCAAAACCAATA
1 AGTCTCCAAGGTCAAAGCCGACAAGCAAACT-AAGGTAGGAAAGTCTCTAGGGTCAAAGCCGATA
* * *
254714 GGCAAACTTGAGGTGAGGT
65 GGCAGACTTGAGCTAAGGT
* * * * * * * *
254733 AGTCTCTAGGGTCAAAGCAGATAGGCAGACTAGGGTAGGAAAGTCTCTAGGGTCAAAGCCGACAG
1 AGTCTCCAAGGTCAAAGCCGACAAGCAAACTAAGGTAGGAAAGTCTCTAGGGTCAAAGCCGATAG
* **
254798 GCAGAC-TGAGGGTAAGAA
66 GCAGACTTGA-GCTAAGGT
* * * * *
254816 AGTCTTCGAA-GTCAAAGCCGACAGGCAGACTTAAGCTGAGG-CAGTCTCTAGGGTCAAAGCCGA
1 AGTC-TCCAAGGTCAAAGCCGACAAGCAAAC-TAAGGT-AGGAAAGTCTCTAGGGTCAAAGCCGA
* ** **
254879 TAAGCAGACTAAAGCTAAGAA
63 TAGGCAGACTTGAGCTAAGGT
* * * * * *
254900 AGTCTTCAAGGTCAAAGCCGACAAGCAGACTTGAGAT-GAGACAA-TCTTTAGGGTCAAAGCTGA
1 AGTCTCCAAGGTCAAAGCCGACAAGCAAAC-TAAGGTAG-GA-AAGTCTCTAGGGTCAAAGCCGA
* * * ***
254963 CAGGTAGAC-TGAGGGTAAAAA
63 TAGGCAGACTTGA-GCTAAGGT
* * * **
254984 AGTCAT-CAAGGTCAAAGCTGACAGGCAGACTTAAGGGTAAAAAAGTCTCTAGGGTCAAAGC
1 AGTC-TCCAAGGTCAAAGCCGACAAGCAAAC-TAA-GGTAGGAAAGTCTCTAGGGTCAAAGC
255045 TGACAAGTAG
Statistics
Matches: 464, Mismatches: 82, Indels: 35
0.80 0.14 0.06
Matches are distributed among these distances:
82 4 0.01
83 69 0.15
84 364 0.78
85 27 0.06
ACGTcount: A:0.35, C:0.19, G:0.28, T:0.18
Consensus pattern (83 bp):
AGTCTCCAAGGTCAAAGCCGACAAGCAAACTAAGGTAGGAAAGTCTCTAGGGTCAAAGCCGATAG
GCAGACTTGAGCTAAGGT
Found at i:254587 original size:126 final size:126
Alignment explanation
Indices: 254364--254930 Score: 486
Period size: 126 Copynumber: 4.5 Consensus size: 126
254354 TGATAGGCAA
* * **** * * * *
254364 GGTCAAAGCCGATAGGCAAACTGATGGAAAAAAAGTCTCTAGGGTCAAAACCGACAAGCAAATTG
1 GGTCAAAGCCGATAAGCAAACTGAGGGTTGGAAAGTCTCTAGGGTCAAAGCCGACAGGCAGACTG
* * * * * * *
254429 AAGGTAGGAAAGTCTCTAGGGTCAAAGCCGATAGGCACACTTGAGCTAAGGTAGTCTCAAA
66 AGGGTAAGAAAGTCTCTAAGGTCAAAGCCGATAGGCAAACTTAAGCTAAGGTAGTCTCTAG
*
254490 GGTCAAAGCCGACAAGCAAACTGAGGGTTGGAAAGTCTCTAGGGTCAAAGCCGAC-GGACAGACT
1 GGTCAAAGCCGATAAGCAAACTGAGGGTTGGAAAGTCTCTAGGGTCAAAGCCGACAGG-CAGAC-
* * ** * * **
254554 TGA-GCTATGGTAGTCTCCAAGGTCAAAGCCGATAGGCAAAC-TAAGGGTAAGAAAGTCTCTAG
64 TGAGGGTAAGAAAGTCTCTAAGGTCAAAGCCGATAGGCAAACTTAA-GCTAAGGTAGTCTCTAG
* * * * ** * * *
254616 GGTCAAAGCCAATAGGCATACTTGA--GATGAGGCAGTCTCCAAGGTCAAAGCTGACAAGG-AGA
1 GGTCAAAGCCGATAAGCAAAC-TGAGGGTTG-GAAAGTCTCTAGGGTCAAAGCCGAC-AGGCAGA
* * * * *
254678 CTGAGGGTAAGAAAGTCTCTAAGGTCAAAACCAATAGGCAAACTTGAGGTGAGGTAGTCTCTAG
63 CTGAGGGTAAGAAAGTCTCTAAGGTCAAAGCCGATAGGCAAACTTAAGCTAAGGTAGTCTCTAG
* * * *
254742 GGTCAAAGCAGATAGGCAGACT-AGGGTAGGAAAGTCTCTAGGGTCAAAGCCGACAGGCAGACTG
1 GGTCAAAGCCGATAAGCAAACTGAGGGTTGGAAAGTCTCTAGGGTCAAAGCCGACAGGCAGACTG
* * * * *
254806 AGGGTAAGAAAGTCTTCGAA-GTCAAAGCCGACAGGCAGACTTAAGCTGAGGCAGTCTCTAG
66 AGGGTAAGAAAGTC-TCTAAGGTCAAAGCCGATAGGCAAACTTAAGCTAAGGTAGTCTCTAG
* * * * ** * *
254867 GGTCAAAGCCGATAAGCAGACTAAAGCTAAGAAAGTCT-TCAAGGTCAAAGCCGACAAGCAGACT
1 GGTCAAAGCCGATAAGCAAACTGAGGGTTGGAAAGTCTCT-AGGGTCAAAGCCGACAGGCAGACT
254931 TGAGATGAGA
Statistics
Matches: 356, Mismatches: 70, Indels: 30
0.78 0.15 0.07
Matches are distributed among these distances:
124 4 0.01
125 105 0.29
126 237 0.67
127 8 0.02
128 2 0.01
ACGTcount: A:0.35, C:0.19, G:0.28, T:0.17
Consensus pattern (126 bp):
GGTCAAAGCCGATAAGCAAACTGAGGGTTGGAAAGTCTCTAGGGTCAAAGCCGACAGGCAGACTG
AGGGTAAGAAAGTCTCTAAGGTCAAAGCCGATAGGCAAACTTAAGCTAAGGTAGTCTCTAG
Found at i:254958 original size:126 final size:125
Alignment explanation
Indices: 254364--255069 Score: 460
Period size: 126 Copynumber: 5.6 Consensus size: 125
254354 TGATAGGCAA
* * * * * * * * *
254364 GGTCAAAGCCGATAGGCAAACTGATGGAAAAAAAGTCTCTAGGGTCAAAACCGACAAGCAAATTG
1 GGTCAAAGCCGATAAGCAGACT-AAGGTAAGAAAGTCTCTAAGGTCAAAGCCGACAAGCAGACTG
* * * * *
254429 AAGG-TAGGAAAGTCTCTAGGGTCAAAGCCGATAGGCACACTTGAGCTAAGGTAGTCTCAAA
65 -AGGATAAGAAAGTCTCTAGGGTCAAAGCCGATAGGCAAACTTAAGCTAAGGTAGTCTCTAG
* * * ** * *
254490 GGTCAAAGCCGACAAGCAAACTGAGGGTTGGAAAGTCTCTAGGGTCAAAGCCGAC-GGACAGACT
1 GGTCAAAGCCGATAAGCAGACT-AAGGTAAGAAAGTCTCTAAGGTCAAAGCCGACAAG-CAGAC-
* * ** * * * **
254554 TGA-GCTATGGTAGTCTCCAAGGTCAAAGCCGATAGGCAAAC-TAAGGGTAAGAAAGTCTCTAG
63 TGAGGATAAGAAAGTCTCTAGGGTCAAAGCCGATAGGCAAACTTAA-GCTAAGGTAGTCTCTAG
* * * * * * ** * * *
254616 GGTCAAAGCCAATAGGCATACTTGAGATGAGGCAGTCTCCAAGGTCAAAGCTGACAAGGAGACTG
1 GGTCAAAGCCGATAAGCAGAC-TAAGGTAAGAAAGTCTCTAAGGTCAAAGCCGACAAGCAGACTG
* * * * * * *
254681 AGGGTAAGAAAGTCTCTAAGGTCAAAACCAATAGGCAAACTTGAGGTGAGGTAGTCTCTAG
65 AGGATAAGAAAGTCTCTAGGGTCAAAGCCGATAGGCAAACTTAAGCTAAGGTAGTCTCTAG
* * * * * *
254742 GGTCAAAGCAGATAGGCAGACTAGGGTAGGAAAGTCTCTAGGGTCAAAGCCGACAGGCAGACTGA
1 GGTCAAAGCCGATAAGCAGACTAAGGTAAGAAAGTCTCTAAGGTCAAAGCCGACAAGCAGACTGA
* * * * * * *
254807 GGGTAAGAAAGTCT-TCGAAGTCAAAGCCGACAGGCAGACTTAAGCTGAGGCAGTCTCTAG
66 GGATAAGAAAGTCTCTAG-GGTCAAAGCCGATAGGCAAACTTAAGCTAAGGTAGTCTCTAG
*
254867 GGTCAAAGCCGATAAGCAGACTAAAGCTAAGAAAGTCT-TCAAGGTCAAAGCCGACAAGCAGACT
1 GGTCAAAGCCGATAAGCAGACT-AAGGTAAGAAAGTCTCT-AAGGTCAAAGCCGACAAGCAGAC-
* * * * * * * * * *** *
254931 TGA-GATGAGACAA-TCTTTAGGGTCAAAGCTGACAGGTAGACTGAGGGTAAAAAAGTCATC-AA
63 TGAGGATAAGA-AAGTCTCTAGGGTCAAAGCCGATAGGCAAACTTAAGCTAAGGTAGTC-TCTAG
* * * * * * *
254993 GGTCAAAGCTGACAGGCAGACTTAAGGGTAAAAAAGTCTCTAGGGTCAAAGCTGACAAGTAGACT
1 GGTCAAAGCCGATAAGCAGAC-TAA-GGTAAGAAAGTCTCTAAGGTCAAAGCCGACAAGCAGAC-
255058 TGAGG-TAAGAAA
63 TGAGGATAAGAAA
255070 AATTCAAATG
Statistics
Matches: 456, Mismatches: 105, Indels: 38
0.76 0.18 0.06
Matches are distributed among these distances:
124 1 0.00
125 108 0.24
126 290 0.64
127 55 0.12
128 2 0.00
ACGTcount: A:0.36, C:0.18, G:0.28, T:0.18
Consensus pattern (125 bp):
GGTCAAAGCCGATAAGCAGACTAAGGTAAGAAAGTCTCTAAGGTCAAAGCCGACAAGCAGACTGA
GGATAAGAAAGTCTCTAGGGTCAAAGCCGATAGGCAAACTTAAGCTAAGGTAGTCTCTAG
Found at i:255277 original size:38 final size:38
Alignment explanation
Indices: 255223--255322 Score: 101
Period size: 44 Copynumber: 2.5 Consensus size: 38
255213 ATTTGACCAG
* *
255223 GGTGGTAACTAGATGTCAAATGAGAAAAATATGACTAA
1 GGTGGTAACCATATGTCAAATGAGAAAAATATGACTAA
* *
255261 GGTGGTAACCATATGTCAAATCAAAATGAGAAAAATCTGACTAG
1 GGTGGTAACCATATG-----TC-AAATGAGAAAAATATGACTAA
*
255305 GGTGGTAACCATACGTCA
1 GGTGGTAACCATATGTCA
255323 GGCTGAAATA
Statistics
Matches: 51, Mismatches: 5, Indels: 12
0.75 0.07 0.18
Matches are distributed among these distances:
38 14 0.27
39 2 0.04
43 2 0.04
44 33 0.65
ACGTcount: A:0.41, C:0.13, G:0.23, T:0.23
Consensus pattern (38 bp):
GGTGGTAACCATATGTCAAATGAGAAAAATATGACTAA
Found at i:258601 original size:17 final size:18
Alignment explanation
Indices: 258575--258611 Score: 58
Period size: 17 Copynumber: 2.1 Consensus size: 18
258565 GCTGTTGCTA
258575 CTTGCTTGATGTTTATTG
1 CTTGCTTGATGTTTATTG
*
258593 CTTGC-TGATGTTTGTTG
1 CTTGCTTGATGTTTATTG
258610 CT
1 CT
258612 GTCTTTTTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 13 0.72
18 5 0.28
ACGTcount: A:0.08, C:0.14, G:0.24, T:0.54
Consensus pattern (18 bp):
CTTGCTTGATGTTTATTG
Found at i:258781 original size:38 final size:37
Alignment explanation
Indices: 258739--258815 Score: 104
Period size: 38 Copynumber: 2.1 Consensus size: 37
258729 TCCTCTCTTT
*
258739 TTTTTTTCTTTTGCTTGGTTC-G-TTTCTTTTGTTTTTTC
1 TTTTTTTCTCTTGC-T-GTTCTGATTTCTTTT-TTTTTTC
258777 TTTTTTTCTCTTGCTGTTCTGATTTCTTTTTTTTTTC
1 TTTTTTTCTCTTGCTGTTCTGATTTCTTTTTTTTTTC
258814 TT
1 TT
258816 GCTGTTTGCG
Statistics
Matches: 36, Mismatches: 1, Indels: 5
0.86 0.02 0.12
Matches are distributed among these distances:
36 4 0.11
37 11 0.31
38 21 0.58
ACGTcount: A:0.01, C:0.14, G:0.10, T:0.74
Consensus pattern (37 bp):
TTTTTTTCTCTTGCTGTTCTGATTTCTTTTTTTTTTC
Found at i:258815 original size:27 final size:27
Alignment explanation
Indices: 258773--258842 Score: 83
Period size: 27 Copynumber: 2.6 Consensus size: 27
258763 TCTTTTGTTT
*
258773 TTTC-TTTTTTTCTCTTGCTG-TTCTGA
1 TTTCTTTTTTTTTTCTTGCTGTTTC-GA
258799 TTTCTTTTTTTTTTCTTGCTGTTTGCGA
1 TTTCTTTTTTTTTTCTTGCTGTTT-CGA
*
258827 -TTCTTTTTTCTTTCTT
1 TTTCTTTTTTTTTTCTT
258843 TTGTTTTGTT
Statistics
Matches: 39, Mismatches: 2, Indels: 5
0.85 0.04 0.11
Matches are distributed among these distances:
26 4 0.10
27 30 0.77
28 4 0.10
29 1 0.03
ACGTcount: A:0.03, C:0.17, G:0.10, T:0.70
Consensus pattern (27 bp):
TTTCTTTTTTTTTTCTTGCTGTTTCGA
Found at i:259403 original size:58 final size:58
Alignment explanation
Indices: 259332--259444 Score: 158
Period size: 58 Copynumber: 1.9 Consensus size: 58
259322 ATACAATGCA
* * *
259332 ATGCATGGCGTGAAAAATG-AAGCAAAGTATGCATGAAATGTAGTGCATGAAATGAACAT
1 ATGCATGGCGTGAAAAATGAAAG-AAAATATGCATGAAATGCAATGCATG-AATGAACAT
*
259391 ATGCAT-GCGTGAAACATGAAAGAAAATATGCATGAAATGCAATGCATGAATGAA
1 ATGCATGGCGTGAAAAATGAAAGAAAATATGCATGAAATGCAATGCATGAATGAA
259445 TTTATGGCAT
Statistics
Matches: 49, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
57 6 0.12
58 34 0.69
59 9 0.18
ACGTcount: A:0.44, C:0.11, G:0.24, T:0.21
Consensus pattern (58 bp):
ATGCATGGCGTGAAAAATGAAAGAAAATATGCATGAAATGCAATGCATGAATGAACAT
Found at i:259614 original size:8 final size:7
Alignment explanation
Indices: 259561--259626 Score: 50
Period size: 8 Copynumber: 9.3 Consensus size: 7
259551 CTCCCTTTTT
259561 TTTATTAA
1 TTTATT-A
259569 TTTATTA
1 TTTATTA
259576 -TTATTA
1 TTTATTA
259582 -TT-TTA
1 TTTATTA
259587 TGTGTATATA
1 T-T-TAT-TA
*
259597 TTTTTTA
1 TTTATTA
259604 TTTAATTA
1 TTT-ATTA
259612 TTTATT-
1 TTTATTA
259618 TTTATTA
1 TTTATTA
259625 TT
1 TT
259627 AATGTCAAAT
Statistics
Matches: 49, Mismatches: 2, Indels: 15
0.74 0.03 0.23
Matches are distributed among these distances:
5 3 0.06
6 14 0.29
7 12 0.24
8 15 0.31
9 2 0.04
10 3 0.06
ACGTcount: A:0.27, C:0.00, G:0.03, T:0.70
Consensus pattern (7 bp):
TTTATTA
Found at i:259952 original size:32 final size:32
Alignment explanation
Indices: 259903--259999 Score: 119
Period size: 35 Copynumber: 3.0 Consensus size: 32
259893 CCTTACAACA
259903 CTATC-TTTCAAAGCTAAGATAGAAACCTC-CT
1 CTATCTTTTCAAAGCTAAGATAG-AACCTCTCT
*
259934 -TATCTTTTCACGAGCTAAGATAGAACCTCTCT
1 CTATCTTTTCA-AAGCTAAGATAGAACCTCTCT
259966 CCCTATCTTTTCAAAGGCTAAGATAGAACCTCTC
1 --CTATCTTTTCAAA-GCTAAGATAGAACCTCTC
260000 AATCACTTAG
Statistics
Matches: 57, Mismatches: 2, Indels: 10
0.83 0.03 0.14
Matches are distributed among these distances:
30 4 0.07
31 11 0.19
32 13 0.23
34 1 0.02
35 28 0.49
ACGTcount: A:0.31, C:0.27, G:0.11, T:0.31
Consensus pattern (32 bp):
CTATCTTTTCAAAGCTAAGATAGAACCTCTCT
Found at i:260476 original size:13 final size:13
Alignment explanation
Indices: 260458--260482 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
260448 ACTATTCACA
260458 TGTATCGATACAC
1 TGTATCGATACAC
260471 TGTATCGATACA
1 TGTATCGATACA
260483 TGAACAGTGA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.20, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAC
Found at i:260622 original size:32 final size:33
Alignment explanation
Indices: 260586--260650 Score: 87
Period size: 33 Copynumber: 2.0 Consensus size: 33
260576 ATAATTCATG
* * *
260586 ATGTATCGCTACCGAG-AATATGTATCGATACA
1 ATGTATCGATACCAAGCAATATATATCGATACA
*
260618 ATGTATCGATACTAAGCAATATATATCGATACA
1 ATGTATCGATACCAAGCAATATATATCGATACA
260651 TTTGGGTGTG
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
32 13 0.46
33 15 0.54
ACGTcount: A:0.38, C:0.17, G:0.15, T:0.29
Consensus pattern (33 bp):
ATGTATCGATACCAAGCAATATATATCGATACA
Found at i:260623 original size:13 final size:13
Alignment explanation
Indices: 260605--260629 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
260595 TACCGAGAAT
260605 ATGTATCGATACA
1 ATGTATCGATACA
260618 ATGTATCGATAC
1 ATGTATCGATAC
260630 TAAGCAATAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:262436 original size:142 final size:141
Alignment explanation
Indices: 262242--262636 Score: 538
Period size: 142 Copynumber: 2.8 Consensus size: 141
262232 TCTCATTTTG
** *
262242 TACCTTAATGGACAACCGAAAAGATACGAAAAGTTTTGAAGATTTCTATACCCCTACAGAAAATC
1 TACCTTAATGGGGAACCGAAAAGATACGAAAAGTTTTGAAAATTTCTATACCCCTACAGAAAATC
*
262307 ATAGGAATATTAGAAATCTTAAAAAATTAAGATAATAATTTTTATTTAATTTCTAATTTTCAAAA
66 ATAGGAATATTAGAAATCTTAAAAAATTAAGATAATAATTTTTATTTAATTTCTAATTTCCAAAA
*
262372 AAATTTATTTCA
131 AAA-TCATTTCA
* * * * *
262384 TACCTTAATGGGGAACCGAAAAAATACAAAAAATTTTAAAAATTTCTATACCCCTACAGAAAACC
1 TACCTTAATGGGGAACCGAAAAGATACGAAAAGTTTTGAAAATTTCTATACCCCTACAGAAAATC
* * * * * *
262449 ATAAGAATATTAGAAATCTTGAAAAATTGAGATATTAATTTTTATTTAATTTTTAATTTCCAAAT
66 ATAGGAATATTAGAAATCTTAAAAAATTAAGATAATAATTTTTATTTAATTTCTAATTTCCAAAA
*
262514 AAATCATTTCT
131 AAATCATTTCA
** ** * * * *
262525 TACCTTAATAAGGAATTGGAAAGATACGAAGAGTTTTGAAAATTTCTATACCCCTATAAAAAATC
1 TACCTTAATGGGGAACCGAAAAGATACGAAAAGTTTTGAAAATTTCTATACCCCTACAGAAAATC
* *
262590 ATAGAAATATTAGAAATCTGAAAAAATTAAGATAATAATTTTTATTT
66 ATAGGAATATTAGAAATCTTAAAAAATTAAGATAATAATTTTTATTT
262637 GGTGATAAAA
Statistics
Matches: 217, Mismatches: 36, Indels: 1
0.85 0.14 0.00
Matches are distributed among these distances:
141 99 0.46
142 118 0.54
ACGTcount: A:0.45, C:0.11, G:0.09, T:0.34
Consensus pattern (141 bp):
TACCTTAATGGGGAACCGAAAAGATACGAAAAGTTTTGAAAATTTCTATACCCCTACAGAAAATC
ATAGGAATATTAGAAATCTTAAAAAATTAAGATAATAATTTTTATTTAATTTCTAATTTCCAAAA
AAATCATTTCA
Found at i:263547 original size:23 final size:25
Alignment explanation
Indices: 263521--263568 Score: 73
Period size: 25 Copynumber: 2.0 Consensus size: 25
263511 TGGCTTAATT
263521 TTTC-TTTTTTTCTCT-TTTTTTTC
1 TTTCTTTTTTTTCTCTCTTTTTTTC
263544 TTTCTTTTTTTTTCTCTCTTTTTTT
1 TTTC-TTTTTTTTCTCTCTTTTTTT
263569 TCTCACTTGC
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
23 4 0.18
25 11 0.50
26 7 0.32
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (25 bp):
TTTCTTTTTTTTCTCTCTTTTTTTC
Found at i:263552 original size:14 final size:14
Alignment explanation
Indices: 263519--263569 Score: 68
Period size: 14 Copynumber: 3.6 Consensus size: 14
263509 TTTGGCTTAA
263519 TTTTTCTTTT-TTTC
1 TTTTT-TTTTCTTTC
263533 TCTTTTTTTTCTTTC
1 T-TTTTTTTTCTTTC
*
263548 TTTTTTTTTCTCTC
1 TTTTTTTTTCTTTC
263562 TTTTTTTT
1 TTTTTTTT
263570 CTCACTTGCT
Statistics
Matches: 34, Mismatches: 1, Indels: 4
0.87 0.03 0.10
Matches are distributed among these distances:
14 25 0.74
15 9 0.26
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (14 bp):
TTTTTTTTTCTTTC
Found at i:263570 original size:23 final size:22
Alignment explanation
Indices: 263519--263571 Score: 70
Period size: 23 Copynumber: 2.3 Consensus size: 22
263509 TTTGGCTTAA
*
263519 TTTTTCTTTTTTTCTCTTTTTT
1 TTTTTCTTTTTTTCTCTTCTTT
*
263541 TTCTTTCTTTTTTTTTCTCTCTTT
1 TT-TTTCTTTTTTTCTCT-TCTTT
263565 TTTTTCT
1 TTTTTCT
263572 CACTTGCTAG
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
22 2 0.07
23 19 0.70
24 6 0.22
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (22 bp):
TTTTTCTTTTTTTCTCTTCTTT
Found at i:263572 original size:13 final size:13
Alignment explanation
Indices: 263525--263572 Score: 71
Period size: 13 Copynumber: 3.7 Consensus size: 13
263515 TTAATTTTTC
263525 TTTTTT-TCTCTT
1 TTTTTTCTCTCTT
*
263537 TTTTTTCTTTCTTT
1 TTTTTTCTCTC-TT
263551 TTTTTTCTCTCTT
1 TTTTTTCTCTCTT
263564 TTTTTTCTC
1 TTTTTTCTC
263573 ACTTGCTAGA
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
12 6 0.19
13 14 0.44
14 12 0.38
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (13 bp):
TTTTTTCTCTCTT
Found at i:263718 original size:20 final size:20
Alignment explanation
Indices: 263689--263726 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
263679 ATTTTCTTTT
* *
263689 ATTTTTCAAGCCATTTTTCC
1 ATTTTCCAAGCAATTTTTCC
263709 ATTTTCCAAGCAATTTTT
1 ATTTTCCAAGCAATTTTT
263727 GATAAGATTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.24, C:0.21, G:0.05, T:0.50
Consensus pattern (20 bp):
ATTTTCCAAGCAATTTTTCC
Found at i:264509 original size:167 final size:162
Alignment explanation
Indices: 264129--264519 Score: 424
Period size: 167 Copynumber: 2.4 Consensus size: 162
264119 TTTAATGATG
* * *
264129 ATATTAGATGAATTTTAAAAATTTTAAACTGAGAAAAATCCTCTCGAAAACGTTTATGGAATAGA
1 ATATTTGATGAATTTTAAAAATTTT-AACTGAG-AAAATCCTCCCGAAAACATTTATGGAATAGA
* * * * *
264194 AACTCGGTTTTTCGAAAATAGAAAATTTCTAGAAAAAAATGAAACACTCTTGAAAATAAATGAAT
64 AACTCGATTTTTCGAAAATAGAAAATTTCAAGAAAAAAATGAAAAACTCATAAAAATAAATGAAT
* ** *
264259 TTTCCAAAACTAATTAACTATGACTTAAATGGTG
129 TTTCCAAAACTAATTAAATATGACTTAAATAATA
* * * * *
264293 ATATTTGATGAATATTAACAATTTTGAACCGAGAAAAACCTCTCCGAAAACATTTATGGCATAGA
1 ATATTTGATGAATTTTAAAAATTTT-AACTGAGAAAATCCTC-CCGAAAACATTTATGGAATAG-
* ** * * *
264358 AAACTCTATTTTTTTAGAAATAGGAGAATTTCAAGGAAATAATGAAAAACTCATAAAAATAAATG
63 AAACTCGATTTTTCGA-AAATA-GAAAATTTCAAGAAAAAAATGAAAAACTCATAAAAATAAATG
* * *
264423 AATTTTTCAAAACTAATTAAATGGTGA-TTAGATAATA
126 AATTTTCCAAAACTAATTAAAT-ATGACTTAAATAATA
* * *
264460 ATATTTTATGAATTTTAAAAATTTTAATCTGATGAAAATCTTCCCGAAAAAATTTATGGA
1 ATATTTGATGAATTTTAAAAATTTTAA-CTGA-GAAAATCCTCCCGAAAACATTTATGGA
264520 GAAGAAAAAT
Statistics
Matches: 185, Mismatches: 35, Indels: 11
0.80 0.15 0.05
Matches are distributed among these distances:
163 8 0.04
164 46 0.25
165 12 0.06
166 7 0.04
167 101 0.55
168 11 0.06
ACGTcount: A:0.45, C:0.10, G:0.12, T:0.32
Consensus pattern (162 bp):
ATATTTGATGAATTTTAAAAATTTTAACTGAGAAAATCCTCCCGAAAACATTTATGGAATAGAAA
CTCGATTTTTCGAAAATAGAAAATTTCAAGAAAAAAATGAAAAACTCATAAAAATAAATGAATTT
TCCAAAACTAATTAAATATGACTTAAATAATA
Found at i:266308 original size:19 final size:20
Alignment explanation
Indices: 266262--266309 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 20
266252 CTAGTTTCAA
266262 AAAATTCCTTTTATTTCATT
1 AAAATTCCTTTTATTTCATT
** *
266282 AATTTTCCTTTT-TTTCCTT
1 AAAATTCCTTTTATTTCATT
266301 AAAATTCCT
1 AAAATTCCT
266310 CGTGTTTTTA
Statistics
Matches: 23, Mismatches: 5, Indels: 1
0.79 0.17 0.03
Matches are distributed among these distances:
19 13 0.57
20 10 0.43
ACGTcount: A:0.25, C:0.19, G:0.00, T:0.56
Consensus pattern (20 bp):
AAAATTCCTTTTATTTCATT
Found at i:267018 original size:19 final size:21
Alignment explanation
Indices: 266994--267034 Score: 68
Period size: 19 Copynumber: 2.0 Consensus size: 21
266984 GAAATGAAAT
266994 AAAATGAAAAAA-A-AAAAGC
1 AAAATGAAAAAACAGAAAAGC
267013 AAAATGAAAAAACAGAAAAGC
1 AAAATGAAAAAACAGAAAAGC
267034 A
1 A
267035 TGGATGACCA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
19 12 0.60
20 1 0.05
21 7 0.35
ACGTcount: A:0.76, C:0.07, G:0.12, T:0.05
Consensus pattern (21 bp):
AAAATGAAAAAACAGAAAAGC
Found at i:267150 original size:11 final size:13
Alignment explanation
Indices: 267114--267153 Score: 50
Period size: 13 Copynumber: 3.3 Consensus size: 13
267104 AGCAAGTGAG
*
267114 AAAA-AGAAGAGA
1 AAAAGAGAAGAAA
267126 AAAAGAGAAGAAA
1 AAAAGAGAAGAAA
267139 AAAAG-GAA-AAA
1 AAAAGAGAAGAAA
267150 AAAA
1 AAAA
267154 TAGGACTTTA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
11 7 0.27
12 7 0.27
13 12 0.46
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (13 bp):
AAAAGAGAAGAAA
Found at i:268291 original size:141 final size:140
Alignment explanation
Indices: 268111--268373 Score: 397
Period size: 141 Copynumber: 1.9 Consensus size: 140
268101 ATCTTTTCGG
* *
268111 TTCTCCATTAAGGTACGAAATGAATTTTTTGAAAATTAAAAATTGAATAAAAATTATTATCTTAA
1 TTCTCCATTAAGATACGAAATGAATTTTTTGAAAATTAAAAATTAAATAAAAATTATTATCTTAA
* *
268176 TTTTTCAAGATTT-TCAATATTCCTATAATTTTTCATAGGGGTATAGAAA-TCTTCAAAACCCTT
66 TTTTTCAAGATTTCT-AATATTCCTAT-AGTTTTCATAGGGATATAGAAATTCTT-AAAACCCTT
268239 CGTATGTTTACAA
128 CGTATGTTTACAA
* *
268252 TTCTCCATTAAGATACGAAAT-AATTTTTTTTAAAATTAAACATTAAATAAAAATTATTATCTTA
1 TTCTCCATTAAGATACGAAATGAA-TTTTTTGAAAATTAAAAATTAAATAAAAATTATTATCTTA
* *
268316 ATTTTTCAAGATTTCTAATATTCCTATGGTTTTCCTAGGGATATAGAAATTCTTAAAA
65 ATTTTTCAAGATTTCTAATATTCCTATAGTTTTCATAGGGATATAGAAATTCTTAAAA
268374 TTTTTTGTAT
Statistics
Matches: 111, Mismatches: 8, Indels: 7
0.88 0.06 0.06
Matches are distributed among these distances:
140 24 0.22
141 86 0.77
142 1 0.01
ACGTcount: A:0.38, C:0.11, G:0.09, T:0.41
Consensus pattern (140 bp):
TTCTCCATTAAGATACGAAATGAATTTTTTGAAAATTAAAAATTAAATAAAAATTATTATCTTAA
TTTTTCAAGATTTCTAATATTCCTATAGTTTTCATAGGGATATAGAAATTCTTAAAACCCTTCGT
ATGTTTACAA
Found at i:269868 original size:28 final size:28
Alignment explanation
Indices: 269828--270007 Score: 168
Period size: 28 Copynumber: 6.4 Consensus size: 28
269818 CACTTTGCGA
*
269828 CAAAGCCCACAAGTCAGTGGCACCCTTT
1 CAAAGACCACAAGTCAGTGGCACCCTTT
* *
269856 CAAAGACCACAAGTTAGTGGCACCATTTT
1 CAAAGACCACAAGTCAGTGGCACC-CTTT
* * *
269885 CAAA-ACCCACAAGTCAGTGGTATCTTTT
1 CAAAGA-CCACAAGTCAGTGGCACCCTTT
* *
269913 CAAAGCCCACAAGTTAGTGGCACCCTTT
1 CAAAGACCACAAGTCAGTGGCACCCTTT
*
269941 CAAAGACCACAAGTCTA-TGGTACCCTTT
1 CAAAGACCACAAGTC-AGTGGCACCCTTT
* * * *
269969 TAAAG-CTCATAAGTCAATGGCACCTTTT
1 CAAAGAC-CACAAGTCAGTGGCACCCTTT
* *
269997 TAAAGCCCACA
1 CAAAGACCACA
270008 CTAGCTGGTG
Statistics
Matches: 126, Mismatches: 19, Indels: 14
0.79 0.12 0.09
Matches are distributed among these distances:
27 2 0.02
28 100 0.79
29 24 0.19
ACGTcount: A:0.32, C:0.28, G:0.16, T:0.24
Consensus pattern (28 bp):
CAAAGACCACAAGTCAGTGGCACCCTTT
Found at i:269923 original size:57 final size:56
Alignment explanation
Indices: 269828--270007 Score: 195
Period size: 57 Copynumber: 3.2 Consensus size: 56
269818 CACTTTGCGA
* * * *
269828 CAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGACCACAAGTTAGTGGCACCATTTT
1 CAAAACCCACAAGTCAGTGGTACCTTTTCAAAGCCCACAAGTTAGTGGCACC-TTTT
* *
269885 CAAAACCCACAAGTCAGTGGTATCTTTTCAAAGCCCACAAGTTAGTGGCACCCTTT
1 CAAAACCCACAAGTCAGTGGTACCTTTTCAAAGCCCACAAGTTAGTGGCACCTTTT
* * * *
269941 CAAAGA-CCACAAGTCTA-TGGTACCCTTTT-AAAGCTCATAAGTCAATGGCACCTTTT
1 CAAA-ACCCACAAGTC-AGTGGTA-CCTTTTCAAAGCCCACAAGTTAGTGGCACCTTTT
* *
269997 TAAAGCCCACA
1 CAAAACCCACA
270008 CTAGCTGGTG
Statistics
Matches: 105, Mismatches: 14, Indels: 9
0.82 0.11 0.07
Matches are distributed among these distances:
56 51 0.49
57 54 0.51
ACGTcount: A:0.32, C:0.28, G:0.16, T:0.24
Consensus pattern (56 bp):
CAAAACCCACAAGTCAGTGGTACCTTTTCAAAGCCCACAAGTTAGTGGCACCTTTT
Found at i:271408 original size:166 final size:165
Alignment explanation
Indices: 270864--271453 Score: 520
Period size: 167 Copynumber: 3.5 Consensus size: 165
270854 ATTTTAATGG
* * ** *
270864 GTTTAAAAGTTTTTAAAATTCATCAAATATTATTATTTAATTCATATCAAATCGGTTTTCAAAAA
1 GTTTAAAA-TTTTTAAAATTCATCAAATATT-GTATTTAATTCACATCAAATCATTTTTGAAAAA
* * ** * * * *
270929 TTCATTCAATTTCATGAGTTTTTGAATTTTTTCATGAAATTCTCTTATTTT--CGAAAAACGGAG
64 ATCATTCATTTTCATGAGTTTTTTTATTTTTTCTTGTAA-TC-CTCATTTTCCCGAAAAACAGAG
* * *
270992 TTTTCTACTTCGTAAAATTTTTTTGGAGGGATTTTTCTTA
127 TTTTCTACTTCAT-AAATTTTTTCGGAGGGAATTTTCTTA
** * * * * *
271032 GTTTTTAATTTTTAAAATTAATCAAATATTACTATTTAATTCACATTAAATCAGTTTTGAAAAAT
1 GTTTAAAATTTTTAAAATTCATCAAATATT-GTATTTAATTCACATCAAATCATTTTTGAAAAAA
* * *
271097 TCATTCATTTTCTTGAG-TTTTTTATTTTTTTCTT-TGAAACCTCCATTTTCCTGAAAAACAGAG
65 TCATTCATTTTCATGAGTTTTTTTA-TTTTTTCTTGT-AATCCT-CATTTTCCCGAAAAACAGAG
* * * * * *
271160 TTTTTTAATCCATAAATATTTTC-GAGGGGATTTTCTTTG
127 TTTTCTACTTCATAAATTTTTTCGGAGGGAATTTTC-TTA
* * ** * *
271199 GTTTAAAATTTTTAAAATGT-ATCTAATAATGTCATGGAATTCCCATTAAATCCA-TTTTGAAAA
1 GTTTAAAATTTTTAAAAT-TCATCAAATATTGT-ATTTAATTCACATCAAAT-CATTTTTGAAAA
* **
271262 AATCATTCATTTTCATGA-TTTTTTTATTTTTTCCTTGTAATGCTCATTTTCCCGAAAAATTGAG
63 AATCATTCATTTTCATGAGTTTTTTTATTTTTT-CTTGTAATCCTCATTTTCCCGAAAAACAGAG
* *
271326 TTTTCTACTTCATAAATTTTTTCGGA-AGAATTTTCTTC
127 TTTTCTACTTCATAAATTTTTTCGGAGGGAATTTTCTTA
*
271364 GATTTAAAATTTTTAAAATTCAT-ATAATATTGTAATTTAATTCCCATCAAATCATTTTTTG-AA
1 G-TTTAAAATTTTTAAAATTCATCA-AATATTGT-ATTTAATTCACATCAAATCA-TTTTTGAAA
*
271427 AAATCAATTTATTTT-ATGAGTTTTTTT
62 AAATC-ATTCATTTTCATGAGTTTTTTT
271454 TTGTAGTTAT
Statistics
Matches: 346, Mismatches: 56, Indels: 41
0.78 0.13 0.09
Matches are distributed among these distances:
165 8 0.02
166 123 0.36
167 186 0.54
168 29 0.08
ACGTcount: A:0.32, C:0.12, G:0.09, T:0.48
Consensus pattern (165 bp):
GTTTAAAATTTTTAAAATTCATCAAATATTGTATTTAATTCACATCAAATCATTTTTGAAAAAAT
CATTCATTTTCATGAGTTTTTTTATTTTTTCTTGTAATCCTCATTTTCCCGAAAAACAGAGTTTT
CTACTTCATAAATTTTTTCGGAGGGAATTTTCTTA
Found at i:271844 original size:15 final size:13
Alignment explanation
Indices: 271814--271856 Score: 50
Period size: 13 Copynumber: 3.2 Consensus size: 13
271804 TAGAAGAGAT
*
271814 AAAAAGAAAAAAA
1 AAAAACAAAAAAA
*
271827 AAAGACAAAAAAA
1 AAAAACAAAAAAA
*
271840 TAAAAATAAAAAAA
1 -AAAAACAAAAAAA
271854 AAA
1 AAA
271857 GCTTTCAGCC
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
13 14 0.56
14 11 0.44
ACGTcount: A:0.88, C:0.02, G:0.05, T:0.05
Consensus pattern (13 bp):
AAAAACAAAAAAA
Found at i:271972 original size:14 final size:14
Alignment explanation
Indices: 271953--271984 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
271943 GCAAGTAGGC
*
271953 AAAAAAGACAGAAA
1 AAAAAAGAAAGAAA
271967 AAAAAAGAAAGAAA
1 AAAAAAGAAAGAAA
271981 AAAA
1 AAAA
271985 GTGAGAAAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.84, C:0.03, G:0.12, T:0.00
Consensus pattern (14 bp):
AAAAAAGAAAGAAA
Found at i:273931 original size:157 final size:156
Alignment explanation
Indices: 273557--273928 Score: 435
Period size: 157 Copynumber: 2.4 Consensus size: 156
273547 TTAGTATCCA
* * * *
273557 TTAGGGGTATTAGGTATTTTTACTTTGAAGGTATCTCCTAAG-GGCATTTTAATAATTTTCTAAA
1 TTAGGGGTATTAGGTACTTTTACATTGAAAGTA-CCCCTAAGAGGCATTTTAATAATTTTCTAAA
*
273621 ATCAAATCCTAGGTTGTCATCGGGTCTGCTTTTATGCCAAAAGTAGATATTTAGGATAGGTCCAT
65 ATCAAATCCTAGGTTGTCATCGGGTCTGCTTTTATGCCAAAAGAAGATATTTAGGATAGGTCCAT
*
273686 CCCTTTTAAAATGCTTTTTTAATCCCT
130 CCCTTTTAAAATGCATTTTTAATCCCT
** * * * * * * * *
273713 TTAACGGTATTAGATTCTTTTACATTGAAAGGTATCCTTTAGAGGCTTTTTAGTAATTTTCTAGA
1 TTAGGGGTATTAGGTACTTTTACATTGAAA-GTACCCCTAAGAGGCATTTTAATAATTTTCTAAA
* * * * * **
273778 ATCCAATCCTAGGTTGTCATCGGGTCTGTTTTTATGTCGAAGGAAGATATTTAGGATAGGTTTAT
65 ATCAAATCCTAGGTTGTCATCGGGTCTGCTTTTATGCCAAAAGAAGATATTTAGGATAGGTCCAT
*
273843 TCCTTTTAAAAT-CATTTTTAAGT-CCT
130 CCCTTTTAAAATGCATTTTTAA-TCCCT
** * *
273869 TTAGGGGTATCGGGTACTTTTACATCGAAAGTACCCCCTAAGAGGCATTTTCATAATTTT
1 TTAGGGGTATTAGGTACTTTTACATTGAAAGTA-CCCCTAAGAGGCATTTTAATAATTTT
273929 TCTTAAACTT
Statistics
Matches: 175, Mismatches: 37, Indels: 8
0.80 0.17 0.04
Matches are distributed among these distances:
155 3 0.02
156 81 0.46
157 91 0.52
ACGTcount: A:0.27, C:0.15, G:0.18, T:0.41
Consensus pattern (156 bp):
TTAGGGGTATTAGGTACTTTTACATTGAAAGTACCCCTAAGAGGCATTTTAATAATTTTCTAAAA
TCAAATCCTAGGTTGTCATCGGGTCTGCTTTTATGCCAAAAGAAGATATTTAGGATAGGTCCATC
CCTTTTAAAATGCATTTTTAATCCCT
Done.