Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032247.1 Gossypioides kirkii chromosome KI_05
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: 50980411
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 1700 characters in sequence are not A, C, G, or T
File 119 of 171
Found at i:37806613 original size:60 final size:59
Alignment explanation
Indices: 37806491--37806803 Score: 237
Period size: 58 Copynumber: 5.3 Consensus size: 59
37806481 ACCCCCAAAC
* * * * *
37806491 TTTCCAAAAATTA-ATTTTGACCCTCGAGC-TTCCAAAAATT-CCATTATTAACCCT-AAA
1 TTTCCAAAAATTACATTTTTAACCTCAAACTTTCCAAAAATTACCATT-TT-ACCCTCGAA
* *
37806548 CTTTCCAAAAATTATATTTTTAACCTCAAACTTTCTAAAAATTACCATTTTTACCCTCGAA
1 -TTTCCAAAAATTACATTTTTAACCTCAAACTTTCCAAAAATTACCA-TTTTACCCTCGAA
* * * * * *
37806609 TTTCCAAAAATTCCATTTTTGACCCCATACTTTCCAAAAATTACCATTTTACCTTCGGA
1 TTTCCAAAAATTACATTTTTAACCTCAAACTTTCCAAAAATTACCATTTTACCCTCGAA
* ** * * * *
37806668 TGTCCAAAAGA-TACATTTTTGCCCTC-GAGTTTTCAAAAATTACCATTTTACCC-CCAGA
1 TTTCCAAAA-ATTACATTTTTAACCTCAAACTTTCCAAAAATTACCATTTTACCCTCGA-A
* * * * * * * *
37806726 TGTCCAAAAATTACATTTTT-GCCCCCAAGTGTCCAAAAATGACCATTTTACCCTCGAG
1 TTTCCAAAAATTACATTTTTAACCTCAAACTTTCCAAAAATTACCATTTTACCCTCGAA
** *
37806784 CATCTAAAAATTACATTTTT
1 TTTCCAAAAATTACATTTTT
37806804 GACTCCATTT
Statistics
Matches: 210, Mismatches: 35, Indels: 20
0.79 0.13 0.08
Matches are distributed among these distances:
57 5 0.02
58 95 0.45
59 45 0.21
60 56 0.27
61 7 0.03
62 2 0.01
ACGTcount: A:0.34, C:0.25, G:0.06, T:0.35
Consensus pattern (59 bp):
TTTCCAAAAATTACATTTTTAACCTCAAACTTTCCAAAAATTACCATTTTACCCTCGAA
Found at i:37806659 original size:90 final size:88
Alignment explanation
Indices: 37806458--37806651 Score: 255
Period size: 90 Copynumber: 2.2 Consensus size: 88
37806448 AAGGTCCCTG
* * *
37806458 AACTTTTCAAAAATTATGTTTTAACCCCCAAACTTTCCAAAAATTAATTTTGACCCTCGAGCTTC
1 AACTTTCCAAAAATTATATTTTAACCCCCAAACTTTCCAAAAATTAATTTTGACCCTCGAACTTC
*
37806523 CAAAAATTCCATTATTAACCCTA
66 CAAAAATTCCATTATTAACCCCA
* * * *
37806546 AACTTTCCAAAAATTATATTTTTAA-CCTCAAACTTTCTAAAAATTACCATTTTTACCCTCGAAT
1 AACTTTCCAAAAATTATA-TTTTAACCCCCAAACTTTCCAAAAATTA--ATTTTGACCCTCGAAC
* *
37806610 TTCCAAAAATTCCATTTTTGACCCCA
63 TTCCAAAAATTCCATTATTAACCCCA
*
37806636 TACTTTCCAAAAATTA
1 AACTTTCCAAAAATTA
37806652 CCATTTTACC
Statistics
Matches: 92, Mismatches: 11, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
88 35 0.38
89 6 0.07
90 51 0.55
ACGTcount: A:0.37, C:0.24, G:0.03, T:0.36
Consensus pattern (88 bp):
AACTTTCCAAAAATTATATTTTAACCCCCAAACTTTCCAAAAATTAATTTTGACCCTCGAACTTC
CAAAAATTCCATTATTAACCCCA
Found at i:37806674 original size:29 final size:30
Alignment explanation
Indices: 37806491--37806780 Score: 191
Period size: 29 Copynumber: 9.9 Consensus size: 30
37806481 ACCCCCAAAC
*
37806491 TTTCCAAAAATTA--ATTTTGACCCTC-GA
1 TTTCCAAAAATTACCATTTTTACCCTCAGA
* * *
37806518 GCTTCCAAAAATT-CCATTATTAACCCT-AAA
1 -TTTCCAAAAATTACCATT-TTTACCCTCAGA
* * *
37806548 CTTTCCAAAAATTA-TATTTTTAACCTCAAA
1 -TTTCCAAAAATTACCATTTTTACCCTCAGA
*
37806578 CTTTCTAAAAATTACCATTTTTACCCTC-GAA
1 -TTTCCAAAAATTACCATTTTTACCCTCAG-A
*
37806609 TTTCCAAAAATT-CCATTTTTGACCC-CATA
1 TTTCCAAAAATTACCATTTTT-ACCCTCAGA
* *
37806638 CTTTCCAAAAATTACCA-TTTTACCTTCGGA
1 -TTTCCAAAAATTACCATTTTTACCCTCAGA
* *
37806668 TGTCCAAAAGA-TA-CATTTTTGCCCTC-GA
1 TTTCCAAAA-ATTACCATTTTTACCCTCAGA
* *
37806696 GTTTTCAAAAATTACCA-TTTTACCCCCAGA
1 -TTTCCAAAAATTACCATTTTTACCCTCAGA
* * *
37806726 TGTCCAAAAATTA-CATTTTTGCCCCCA-A
1 TTTCCAAAAATTACCATTTTTACCCTCAGA
* *
37806754 GTGTCCAAAAATGACCA-TTTTACCCTC
1 -TTTCCAAAAATTACCATTTTTACCCTC
37806781 GAGCATCTAA
Statistics
Matches: 210, Mismatches: 30, Indels: 43
0.74 0.11 0.15
Matches are distributed among these distances:
28 19 0.09
29 98 0.47
30 78 0.37
31 15 0.07
ACGTcount: A:0.33, C:0.26, G:0.06, T:0.35
Consensus pattern (30 bp):
TTTCCAAAAATTACCATTTTTACCCTCAGA
Found at i:37806803 original size:29 final size:29
Alignment explanation
Indices: 37806701--37806803 Score: 79
Period size: 29 Copynumber: 3.6 Consensus size: 29
37806691 CTCGAGTTTT
37806701 CAAAAATTACCA-TTTTACCCCC-AG-ATGTC
1 CAAAAATTA-CATTTTTACCCCCAAGCA--TC
* **
37806730 CAAAAATTACATTTTTGCCCCCAAGTGTC
1 CAAAAATTACATTTTTACCCCCAAGCATC
* * *
37806759 CAAAAATGACCA-TTTTACCCTCGAGCATC
1 CAAAAATTA-CATTTTTACCCCCAAGCATC
*
37806788 TAAAAATTACATTTTT
1 CAAAAATTACATTTTT
37806804 GACTCCATTT
Statistics
Matches: 59, Mismatches: 10, Indels: 10
0.75 0.13 0.13
Matches are distributed among these distances:
28 4 0.07
29 51 0.86
30 4 0.07
ACGTcount: A:0.35, C:0.26, G:0.08, T:0.31
Consensus pattern (29 bp):
CAAAAATTACATTTTTACCCCCAAGCATC
Found at i:37810096 original size:39 final size:39
Alignment explanation
Indices: 37810050--37810148 Score: 180
Period size: 39 Copynumber: 2.5 Consensus size: 39
37810040 TTAAATAGGG
37810050 TTTTAATGTGTCTTAGTTTGATACATATTTAATAGTTGT
1 TTTTAATGTGTCTTAGTTTGATACATATTTAATAGTTGT
37810089 TTTTAATGTGTCTTAGTTTGATACATATTTAATAGTTGT
1 TTTTAATGTGTCTTAGTTTGATACATATTTAATAGTTGT
* *
37810128 TTTTAATGTATCTAAGTTTGA
1 TTTTAATGTGTCTTAGTTTGA
37810149 GACAAATTAA
Statistics
Matches: 58, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
39 58 1.00
ACGTcount: A:0.26, C:0.05, G:0.15, T:0.54
Consensus pattern (39 bp):
TTTTAATGTGTCTTAGTTTGATACATATTTAATAGTTGT
Found at i:37810230 original size:32 final size:32
Alignment explanation
Indices: 37810194--37810288 Score: 172
Period size: 32 Copynumber: 3.0 Consensus size: 32
37810184 AGTCGAAATT
37810194 AATTAGCTGATTAATGTGTTTCAGGTACATGC
1 AATTAGCTGATTAATGTGTTTCAGGTACATGC
37810226 AATTAGCTGATTAATGTGTTTCAGGTACATGC
1 AATTAGCTGATTAATGTGTTTCAGGTACATGC
* *
37810258 AATTAGCTGATTAATATATTTCAGGTACATG
1 AATTAGCTGATTAATGTGTTTCAGGTACATG
37810289 TATGGATGGC
Statistics
Matches: 61, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 61 1.00
ACGTcount: A:0.31, C:0.12, G:0.20, T:0.38
Consensus pattern (32 bp):
AATTAGCTGATTAATGTGTTTCAGGTACATGC
Found at i:37811340 original size:10 final size:9
Alignment explanation
Indices: 37811324--37811350 Score: 54
Period size: 9 Copynumber: 3.0 Consensus size: 9
37811314 GTAAGTTCTT
37811324 GAAAAAAAA
1 GAAAAAAAA
37811333 GAAAAAAAA
1 GAAAAAAAA
37811342 GAAAAAAAA
1 GAAAAAAAA
37811351 TTCGTGATAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 18 1.00
ACGTcount: A:0.89, C:0.00, G:0.11, T:0.00
Consensus pattern (9 bp):
GAAAAAAAA
Found at i:37811416 original size:22 final size:23
Alignment explanation
Indices: 37811391--37811435 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 23
37811381 AGAAGTGCAA
37811391 AGTTT-GAAA-TATTAAAAAAAAG
1 AGTTTCGAAAGTA-TAAAAAAAAG
37811413 AGTTTCGAAAGTATAAAAAAAAG
1 AGTTTCGAAAGTATAAAAAAAAG
37811436 GCTAGTTTGT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
22 5 0.24
23 14 0.67
24 2 0.10
ACGTcount: A:0.58, C:0.02, G:0.16, T:0.24
Consensus pattern (23 bp):
AGTTTCGAAAGTATAAAAAAAAG
Found at i:37813460 original size:21 final size:22
Alignment explanation
Indices: 37813436--37813476 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
37813426 TGTTGATCAA
*
37813436 GAGAGGGAAAA-AGAAAAGAGT
1 GAGAAGGAAAATAGAAAAGAGT
*
37813457 GAGAATGAAAATAGAAAAGA
1 GAGAAGGAAAATAGAAAAGA
37813477 AAGTGAAGAG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 9 0.53
22 8 0.47
ACGTcount: A:0.61, C:0.00, G:0.32, T:0.07
Consensus pattern (22 bp):
GAGAAGGAAAATAGAAAAGAGT
Found at i:37817053 original size:15 final size:17
Alignment explanation
Indices: 37817035--37817066 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
37817025 AATAAAATGG
37817035 AAAA-AAAAGGAGAGGA
1 AAAAGAAAAGGAGAGGA
37817051 AAAAGAAAAGGAGAGG
1 AAAAGAAAAGGAGAGG
37817067 TCGAGGTGAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 4 0.27
17 11 0.73
ACGTcount: A:0.66, C:0.00, G:0.34, T:0.00
Consensus pattern (17 bp):
AAAAGAAAAGGAGAGGA
Found at i:37817117 original size:44 final size:44
Alignment explanation
Indices: 37817069--37817168 Score: 182
Period size: 44 Copynumber: 2.3 Consensus size: 44
37817059 AGGAGAGGTC
37817069 GAGGTGAAAACTCGTAAAGGACATCTCGAAACCTAAGGAGACTT
1 GAGGTGAAAACTCGTAAAGGACATCTCGAAACCTAAGGAGACTT
*
37817113 GAGGTGAAAACTCGTAAAGGGCATCTCGAAACCTAAGGAGACTT
1 GAGGTGAAAACTCGTAAAGGACATCTCGAAACCTAAGGAGACTT
*
37817157 GAGTTGAAAACT
1 GAGGTGAAAACT
37817169 TGAAAGGGCG
Statistics
Matches: 54, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
44 54 1.00
ACGTcount: A:0.38, C:0.17, G:0.26, T:0.19
Consensus pattern (44 bp):
GAGGTGAAAACTCGTAAAGGACATCTCGAAACCTAAGGAGACTT
Found at i:37818288 original size:148 final size:148
Alignment explanation
Indices: 37818009--37818533 Score: 504
Period size: 148 Copynumber: 3.6 Consensus size: 148
37817999 TTGACAGGGG
* * *
37818009 AAGGTTGAGGCCGTAACGGCGAACCTGATACCATGAAGAGATGAAGGGAAGGATTGAGG-TCGCG
1 AAGGTTGAGGCCGTAACGGCGAACCTGGTACC-TCAAAAGATGAAGGGAAGGATTGAGGCT-GCG
* ** * * * * *
37818073 ATGGCGAATCCAGTTCCTAAGAAGATGTGATGGGAAACGTTGAGGCCACAACGGCAAACCTGGTA
64 ACGGCGAATCTGGTACCTTAGAAGATGTGATGGGAAAGGTTGAGGCCGCAACGGCGAACCTGGTA
*
37818138 CCTAAGAAGATGTGATGAGA
129 CCTAAGAAGATGTGATGGGA
* * *
37818158 AAGGTTGAGGCCGTAATGGCGAACTTGGTACCAT-AAAAGATGAAGGAAAGGATTGAGGCTGCGA
1 AAGGTTGAGGCCGTAACGGCGAACCTGGTACC-TCAAAAGATGAAGGGAAGGATTGAGGCTGCGA
* * * * * *
37818222 CGGCAAATCTGGTACCTTAGAAGATGTGATGGGAAAGGTTAAGGCTGCAACGGTGAACCCGATAC
65 CGGCGAATCTGGTACCTTAGAAGATGTGATGGGAAAGGTTGAGGCCGCAACGGCGAACCTGGTAC
37818287 CTAAGAAGATGTGATGGGA
130 CTAAGAAGATGTGATGGGA
* * * * * *
37818306 ATGGGTGAGGCTGCAATGGCGAACCT-G-ACAC-C-----ATGAAGGGAAGGATTGAGGCCGCGA
1 AAGGTTGAGGCCGTAACGGCGAACCTGGTAC-CTCAAAAGATGAAGGGAAGGATTGAGGCTGCGA
* * * *
37818363 CGGCGAAT-TCGATACCTTAAAAGATGTGATGGGAAAGGTTGAGGCCGCAA-TGCGAATCTGGTA
65 CGGCGAATCT-GGTACCTTAGAAGATGTGATGGGAAAGGTTGAGGCCGCAACGGCGAACCTGGTA
37818426 CCTCAA-AAGATGTGATGGGA
129 CCT-AAGAAGATGTGATGGGA
* * * *
37818446 AAGGTTGAGGCCGTAACAGCGAA-TTCGGTACCTCAAAAGATATGATGGGAAAGG-TTGAGGCCG
1 AAGGTTGAGGCCGTAACGGCGAACCT-GGTACCTCAAAAG--ATGAAGGG-AAGGATTGAGGCTG
* * * *
37818509 CAACGGCGAACCCGATACCTTAGAA
62 CGACGGCGAATCTGGTACCTTAGAA
37818534 AATAAAATGG
Statistics
Matches: 309, Mismatches: 49, Indels: 36
0.78 0.12 0.09
Matches are distributed among these distances:
139 1 0.00
140 43 0.14
141 70 0.23
142 3 0.01
146 2 0.01
147 2 0.01
148 116 0.38
149 68 0.22
150 4 0.01
ACGTcount: A:0.32, C:0.17, G:0.33, T:0.18
Consensus pattern (148 bp):
AAGGTTGAGGCCGTAACGGCGAACCTGGTACCTCAAAAGATGAAGGGAAGGATTGAGGCTGCGAC
GGCGAATCTGGTACCTTAGAAGATGTGATGGGAAAGGTTGAGGCCGCAACGGCGAACCTGGTACC
TAAGAAGATGTGATGGGA
Found at i:37818303 original size:50 final size:50
Alignment explanation
Indices: 37818009--37818520 Score: 377
Period size: 50 Copynumber: 10.5 Consensus size: 50
37817999 TTGACAGGGG
* * * *
37818009 AAGGTTGAGGCCGTAACGGCGAACCTGATACC-ATGAAGA-GATGAAGGG-
1 AAGGTTGAGGCCGCAACGGCGAACCTGGTACCTAAGAAGATG-TGATGGGA
* * * * *
37818057 AAGGATTGAGGTCGCGATGGCGAATCC-AGTTCCTAAGAAGATGTGATGGGA
1 AAGG-TTGAGGCCGCAACGGCGAA-CCTGGTACCTAAGAAGATGTGATGGGA
* * * *
37818108 AACGTTGAGGCCACAACGGCAAACCTGGTACCTAAGAAGATGTGATGAGA
1 AAGGTTGAGGCCGCAACGGCGAACCTGGTACCTAAGAAGATGTGATGGGA
* * * *
37818158 AAGGTTGAGGCCGTAATGGCGAACTTGGTACCATAA-AAGA--TGA-AGGA
1 AAGGTTGAGGCCGCAACGGCGAACCTGGTACC-TAAGAAGATGTGATGGGA
* * * * *
37818205 AAGGATTGAGGCTGCGACGGCAAATCTGGTACCTTAGAAGATGTGATGGGA
1 AAGG-TTGAGGCCGCAACGGCGAACCTGGTACCTAAGAAGATGTGATGGGA
* * * * *
37818256 AAGGTTAAGGCTGCAACGGTGAACCCGATACCTAAGAAGATGTGATGGGA
1 AAGGTTGAGGCCGCAACGGCGAACCTGGTACCTAAGAAGATGTGATGGGA
* * * * ** * *
37818306 ATGGGTGAGGCTGCAATGGCGAACCTGACACC-ATGAAG--G-GA-AGG-
1 AAGGTTGAGGCCGCAACGGCGAACCTGGTACCTAAGAAGATGTGATGGGA
* * *
37818350 -A--TTGAGGCCGCGACGGCGAA-TTCGATACCTTAA-AAGATGTGATGGGA
1 AAGGTTGAGGCCGCAACGGCGAACCT-GGTACC-TAAGAAGATGTGATGGGA
* *
37818397 AAGGTTGAGGCCGCAA-TGCGAATCTGGTACCTCAA-AAGATGTGATGGGA
1 AAGGTTGAGGCCGCAACGGCGAACCTGGTACCT-AAGAAGATGTGATGGGA
* * * *
37818446 AAGGTTGAGGCCGTAACAGCGAA-TTCGGTACCTCAA-AAGATATGATGGGA
1 AAGGTTGAGGCCGCAACGGCGAACCT-GGTACCT-AAGAAGATGTGATGGGA
37818496 AAGGTTGAGGCCGCAACGGCGAACC
1 AAGGTTGAGGCCGCAACGGCGAACC
37818521 CGATACCTTA
Statistics
Matches: 364, Mismatches: 72, Indels: 53
0.74 0.15 0.11
Matches are distributed among these distances:
40 1 0.00
41 20 0.05
42 3 0.01
43 1 0.00
44 1 0.00
45 4 0.01
46 4 0.01
47 9 0.02
48 34 0.09
49 67 0.18
50 206 0.57
51 14 0.04
ACGTcount: A:0.32, C:0.17, G:0.33, T:0.18
Consensus pattern (50 bp):
AAGGTTGAGGCCGCAACGGCGAACCTGGTACCTAAGAAGATGTGATGGGA
Found at i:37818528 original size:50 final size:50
Alignment explanation
Indices: 37818338--37818570 Score: 238
Period size: 50 Copynumber: 4.7 Consensus size: 50
37818328 ACCTGACACC
* * * *
37818338 ATGAAGGG-AAGGATTGAGGCCGCGACGGCGAATTCGATACCTTAAAAGAT
1 ATGATGGGAAAGG-TTGAGGCCGCAACGGCGAATCCGATACCTCAAAAGAT
* * * *
37818388 GTGATGGGAAAGGTTGAGGCCGCAA-TGCGAATCTGGTACCTCAAAAGAT
1 ATGATGGGAAAGGTTGAGGCCGCAACGGCGAATCCGATACCTCAAAAGAT
* * * * *
37818437 GTGATGGGAAAGGTTGAGGCCGTAACAGCGAATTCGGTACCTCAAAAGAT
1 ATGATGGGAAAGGTTGAGGCCGCAACGGCGAATCCGATACCTCAAAAGAT
* *
37818487 ATGATGGGAAAGGTTGAGGCCGCAACGGCGAACCCGATACCTTAGAAA-AT
1 ATGATGGGAAAGGTTGAGGCCGCAACGGCGAATCCGATACCTCA-AAAGAT
** * * * *
37818537 AAAATGGAAAAGATTGAAGCCGCAATGGCGAATC
1 ATGATGGGAAAGGTTGAGGCCGCAACGGCGAATC
37818571 TTATACCATA
Statistics
Matches: 154, Mismatches: 26, Indels: 6
0.83 0.14 0.03
Matches are distributed among these distances:
49 43 0.28
50 104 0.68
51 7 0.05
ACGTcount: A:0.34, C:0.17, G:0.31, T:0.18
Consensus pattern (50 bp):
ATGATGGGAAAGGTTGAGGCCGCAACGGCGAATCCGATACCTCAAAAGAT
Found at i:37818546 original size:99 final size:100
Alignment explanation
Indices: 37818346--37818561 Score: 249
Period size: 99 Copynumber: 2.2 Consensus size: 100
37818336 CCATGAAGGG
* * * *
37818346 AAGGATTGAGGCCGCGACGGCGAATTCGATACCTTAAAAGATGTGATGGGAAAGGTTGAGGCCGC
1 AAGGATTGAGGCCGCAACAGCGAATTCGATACCTCAAAAGATATGATGGGAAAGGTTGAGGCCGC
* * * * ***
37818411 AATGCGAATCTGGTACCTCAAAAGATGTGATGGGA
66 AAGGCGAACCCGATACCTCAAAAGATAAAATGGGA
* *
37818446 AAGG-TTGAGGCCGTAACAGCGAATTCGGTACCTCAAAAGATATGATGGGAAAGGTTGAGGCCGC
1 AAGGATTGAGGCCGCAACAGCGAATTCGATACCTCAAAAGATATGATGGGAAAGGTTGAGGCCGC
*
37818510 AACGGCGAACCCGATACCTTAGAAA-ATAAAAT-GGA
66 AA-GGCGAACCCGATACCTCA-AAAGATAAAATGGGA
* *
37818545 AAAGATTGAAGCCGCAA
1 AAGGATTGAGGCCGCAA
37818562 TGGCGAATCT
Statistics
Matches: 96, Mismatches: 17, Indels: 6
0.81 0.14 0.05
Matches are distributed among these distances:
99 62 0.65
100 31 0.32
101 3 0.03
ACGTcount: A:0.35, C:0.17, G:0.30, T:0.18
Consensus pattern (100 bp):
AAGGATTGAGGCCGCAACAGCGAATTCGATACCTCAAAAGATATGATGGGAAAGGTTGAGGCCGC
AAGGCGAACCCGATACCTCAAAAGATAAAATGGGA
Found at i:37818564 original size:240 final size:239
Alignment explanation
Indices: 37818136--37818568 Score: 536
Period size: 240 Copynumber: 1.8 Consensus size: 239
37818126 GCAAACCTGG
*
37818136 TACCTAAGAAGATGTGATGAGAAAGGTTGAGGCCGTAATGGCGAACTTGGTACCATAAAAGATGA
1 TACCTAAGAAGATGTGATGAGAAAGGTTGAGGCCGCAATGGCGAACTTGGTACCATAAAAGATGA
* * * * * *
37818201 AGGAAAGGATTGAGGCTGCGACGGCAAATCTGGTACCTTAGAAGATGTGATGGGAAAGGTTAAGG
66 AGGAAAGGATTGAGGCCGCAACAGCAAATCTGGTACCTCAAAAGATATGATGGGAAAGGTTAAGG
* * * *** * * * * *
37818266 CTGCAACGGTGAACCCGATACCTAAGAAGATGTGATGGGAATGGGTGAGGCTGCAATGGCGAACC
131 CCGCAACGGCGAACCCGATACCTAAGAAAATAAAATGGAAAAGAGTGAAGCCGCAATGGCGAACC
37818331 TGACACCATGAAGGGAAGGATTGAGGCCGCGACGGCGAATTCGA
196 TGACACCATGAAGGGAAGGATTGAGGCCGCGACGGCGAATTCGA
*
37818375 TACCTTAA-AAGATGTGATGGGAAAGGTTGAGGCCGCAAT-GCGAA-TCTGGTACC-TCAAAAGA
1 TACC-TAAGAAGATGTGATGAGAAAGGTTGAGGCCGCAATGGCGAACT-TGGTACCAT-AAAAGA
* * *
37818436 TGTGATGGGAAAGG-TTGAGGCCGTAACAGCGAAT-TCGGTACCTCAAAAGATATGATGGGAAAG
63 --TGA-AGGAAAGGATTGAGGCCGCAACAGCAAATCT-GGTACCTCAAAAGATATGATGGGAAAG
* * *
37818499 GTTGAGGCCGCAACGGCGAACCCGATACCTTAGAAAATAAAATGGAAAAGATTGAAGCCGCAATG
124 GTTAAGGCCGCAACGGCGAACCCGATACCTAAGAAAATAAAATGGAAAAGAGTGAAGCCGCAATG
37818564 GCGAA
189 GCGAA
37818569 TCTTATACCA
Statistics
Matches: 162, Mismatches: 25, Indels: 13
0.81 0.12 0.06
Matches are distributed among these distances:
237 2 0.01
238 18 0.11
239 34 0.21
240 101 0.62
241 7 0.04
ACGTcount: A:0.34, C:0.16, G:0.32, T:0.18
Consensus pattern (239 bp):
TACCTAAGAAGATGTGATGAGAAAGGTTGAGGCCGCAATGGCGAACTTGGTACCATAAAAGATGA
AGGAAAGGATTGAGGCCGCAACAGCAAATCTGGTACCTCAAAAGATATGATGGGAAAGGTTAAGG
CCGCAACGGCGAACCCGATACCTAAGAAAATAAAATGGAAAAGAGTGAAGCCGCAATGGCGAACC
TGACACCATGAAGGGAAGGATTGAGGCCGCGACGGCGAATTCGA
Found at i:37818842 original size:39 final size:38
Alignment explanation
Indices: 37818795--37819016 Score: 137
Period size: 39 Copynumber: 5.7 Consensus size: 38
37818785 GAAGATTTCG
**
37818795 ATCTCTTACCTTGAGCTTGGGGCAGATCACCATTAGCCA
1 ATCTCTTACCCCGAGCTTGGGGCAGATCACCATTA-CCA
* * * *
37818834 ATCTCTTACCCCAAGCTTTGGGCAGCTTGCAACCATT--CG
1 ATCTCTTACCCCGAGCTTGGGGCAG-AT-C-ACCATTACCA
* * *
37818873 ATCTTTTACCCCGAGCTTGGGGAAGATCACCATCAACCA
1 ATCTCTTACCCCGAGCTTGGGGCAGATCACCAT-TACCA
* * * *
37818912 ATCTCTTACCTCGAGCCTAGGGGCAGATTA-CAGTTATCCG
1 ATCTCTTACCCCGAG-CTTGGGGCAGATCACCA-TTA-CCA
* * * * **
37818952 ATCTTTTACCCCGACCATGGGGCAGATCACAACCATCCA
1 ATCTCTTACCCCGAGCTTGGGGCAGATCACCATTA-CCA
* * *
37818991 ATCTCTTA-TCCGATCATGGGGCAGAT
1 ATCTCTTACCCCGAGCTTGGGGCAGAT
37819017 TACAGTTATC
Statistics
Matches: 140, Mismatches: 33, Indels: 21
0.72 0.17 0.11
Matches are distributed among these distances:
36 5 0.04
37 1 0.01
38 17 0.12
39 82 0.59
40 28 0.20
41 1 0.01
42 6 0.04
ACGTcount: A:0.24, C:0.30, G:0.19, T:0.26
Consensus pattern (38 bp):
ATCTCTTACCCCGAGCTTGGGGCAGATCACCATTACCA
Found at i:37818889 original size:78 final size:79
Alignment explanation
Indices: 37818791--37818998 Score: 220
Period size: 79 Copynumber: 2.6 Consensus size: 79
37818781 GATCGAAGAT
* ** * * **
37818791 TTCGATCTCTTACCTTGAGCTTGGGGCAGATCACCATTAGCCAATCTCTTACCCCAAG-CTTTGG
1 TTCGATCTTTTACCCCGAGCTTGGGGCAGATCACCATCAACCAATCTCTTACCCCAAGCCTAGGG
* *
37818855 GCAGCTTGCAACCA
66 GCAGATTACAACCA
* * *
37818869 TTCGATCTTTTACCCCGAGCTTGGGGAAGATCACCATCAACCAATCTCTTACCTCGAGCCTAGGG
1 TTCGATCTTTTACCCCGAGCTTGGGGCAGATCACCATCAACCAATCTCTTACCCCAAGCCTAGGG
***
37818934 GCAGATTACAGTTA
66 GCAGATTACAACCA
* * * * * *
37818948 TCCGATCTTTTACCCCGACCATGGGGCAGATCACAACCATCCAATCTCTTA
1 TTCGATCTTTTACCCCGAGCTTGGGGCAGATCACCATCAACCAATCTCTTA
37818999 TCCGATCATG
Statistics
Matches: 107, Mismatches: 22, Indels: 1
0.82 0.17 0.01
Matches are distributed among these distances:
78 50 0.47
79 57 0.53
ACGTcount: A:0.24, C:0.31, G:0.18, T:0.27
Consensus pattern (79 bp):
TTCGATCTTTTACCCCGAGCTTGGGGCAGATCACCATCAACCAATCTCTTACCCCAAGCCTAGGG
GCAGATTACAACCA
Found at i:37818973 original size:79 final size:77
Alignment explanation
Indices: 37818871--37819026 Score: 213
Period size: 79 Copynumber: 2.0 Consensus size: 77
37818861 TGCAACCATT
* * * * *
37818871 CGATCTTTTACCCCGAGCTTGGGGAAGATCACCATCAACCAATCTCTTACCTCGAGCCTAGGGGC
1 CGATCTTTTACCCCGACCATGGGGAAGATCACAACCAACCAATCTCTTACC-CGAGCAT-GGGGC
37818936 AGATTACAGTTATC
64 AGATTACAGTTATC
* * * *
37818950 CGATCTTTTACCCCGACCATGGGGCAGATCACAACCATCCAATCTCTTATCCGATCATGGGGCAG
1 CGATCTTTTACCCCGACCATGGGGAAGATCACAACCAACCAATCTCTTACCCGAGCATGGGGCAG
37819015 ATTACAGTTATC
66 ATTACAGTTATC
37819027 GAAGTAATAA
Statistics
Matches: 68, Mismatches: 9, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
77 19 0.28
78 5 0.07
79 44 0.65
ACGTcount: A:0.26, C:0.29, G:0.19, T:0.26
Consensus pattern (77 bp):
CGATCTTTTACCCCGACCATGGGGAAGATCACAACCAACCAATCTCTTACCCGAGCATGGGGCAG
ATTACAGTTATC
Found at i:37819403 original size:209 final size:209
Alignment explanation
Indices: 37819025--37819902 Score: 1158
Period size: 209 Copynumber: 4.2 Consensus size: 209
37819015 ATTACAGTTA
* ** * * * *
37819025 TCGAAGTAATAAAGT-GTCGTCTTCCTGATGAGACACAGAGAAGTGGACCAAACCCGTCTTCTTG
1 TCGAAGCAATAAAGTGGTTATCTTCCTGATGAGATACAGAGAAGTGAACCAAATCCGTCTTCCTG
* * * * * * *
37819089 ATGAGATATAAAGAAGTGGATTAAAA-TAGTGATGCGGTCATCTTCATTATGAGATACAGAGAAG
66 ATGAGATACAGAGAAGCGGATCAAAACAAGTGATGCGGTCATCTTCATGATGAGATACTGAGAAG
* *
37819153 TATG-CCAAATCAATGAAACAAAGCTCAATGTGAGAGAAACTTCGAATCCCAGCTTCCTGATGAG
131 TA-GACCAAATCAATGAAACAAAGCTCAATGTGAGCGAAACTTCGAACCCCAGCTTCCTGATGAG
*
37819217 ATACTGAGAAGCAGG
195 ATACTAAGAAGCAGG
* * * * * *
37819232 TCGAAGAAATAAAGTGGTTGTCTTCCTAATGAGATACAAAGAAGTGGACCAAATCCGTCTTCCTA
1 TCGAAGCAATAAAGTGGTTATCTTCCTGATGAGATACAGAGAAGTGAACCAAATCCGTCTTCCTG
*
37819297 ATGAGATACAGAGAAGCGGATTAAAACAAGTGATGCGGTCATCTTTC-TGATGAGATACTGAGAA
66 ATGAGATACAGAGAAGCGGATCAAAACAAGTGATGCGGTCATC-TTCATGATGAGATACTGAGAA
*
37819361 GTAGACCAAATCAACGAAACAAAGCTCAATGTGAGCGAAACTTCGAACCCCCA-CTTCCTGATGA
130 GTAGACCAAATCAATGAAACAAAGCTCAATGTGAGCGAAACTTCGAA-CCCCAGCTTCCTGATGA
*
37819425 GATATTAAGAAGCAGG
194 GATACTAAGAAGCAGG
* * * *
37819441 TCGAAGCAATAAAGCGGTTACCTTCCTGATGAGATACGGAGAAGTGAACCAGATCCGTCTTCCTG
1 TCGAAGCAATAAAGTGGTTATCTTCCTGATGAGATACAGAGAAGTGAACCAAATCCGTCTTCCTG
* * * *
37819506 ATGAGACACAGAGAAGTGGATCAAAACAAGTGATACGGTCATCTTCTTGATGAGATACTGAGAAG
66 ATGAGATACAGAGAAGCGGATCAAAACAAGTGATGCGGTCATCTTCATGATGAGATACTGAGAAG
* * * *
37819571 TAGACCAAATCAATGAAACTAGGCTCAAAGTGAGC-AAATCTTTGAACCCCAGCTTCCTGATGAG
131 TAGACCAAATCAATGAAACAAAGCTCAATGTGAGCGAAA-CTTCGAACCCCAGCTTCCTGATGAG
* * *
37819635 ATACTGAGAAGTAGA
195 ATACTAAGAAGCAGG
** * * *
37819650 TTAAAGCAATAAAGAGTTTA-CTTCCTGATGAGATACAGAGAAGTGAACCAGATCCGTCTTCCTG
1 TCGAAGCAATAAAGTGGTTATCTTCCTGATGAGATACAGAGAAGTGAACCAAATCCGTCTTCCTG
* * ** * * *
37819714 ATGAGATACAGAGAAGCAGCTCAAAACAAGCAATGCGATCATCTTCCTGATTAGATACTGAGAAG
66 ATGAGATACAGAGAAGCGGATCAAAACAAGTGATGCGGTCATCTTCATGATGAGATACTGAGAAG
*
37819779 TAGACCAAATCAATGAAACCAAAGCTCGATGTGAGCGAAACTTCGAACCCCAGCTTCCTGATGAG
131 TAGACCAAATCAATGAAA-CAAAGCTCAATGTGAGCGAAACTTCGAACCCCAGCTTCCTGATGAG
37819844 ATACTAAGAAGCAGG
195 ATACTAAGAAGCAGG
* *
37819859 TCGAAGCAATAAAATGGTTATCTTCCTGATGAGATACAAAGAAG
1 TCGAAGCAATAAAGTGGTTATCTTCCTGATGAGATACAGAGAAG
37819903 AAGATCAAGA
Statistics
Matches: 589, Mismatches: 71, Indels: 19
0.87 0.10 0.03
Matches are distributed among these distances:
207 14 0.02
208 193 0.33
209 350 0.59
210 32 0.05
ACGTcount: A:0.37, C:0.19, G:0.22, T:0.22
Consensus pattern (209 bp):
TCGAAGCAATAAAGTGGTTATCTTCCTGATGAGATACAGAGAAGTGAACCAAATCCGTCTTCCTG
ATGAGATACAGAGAAGCGGATCAAAACAAGTGATGCGGTCATCTTCATGATGAGATACTGAGAAG
TAGACCAAATCAATGAAACAAAGCTCAATGTGAGCGAAACTTCGAACCCCAGCTTCCTGATGAGA
TACTAAGAAGCAGG
Found at i:37820300 original size:17 final size:17
Alignment explanation
Indices: 37820275--37820386 Score: 109
Period size: 17 Copynumber: 6.5 Consensus size: 17
37820265 CCCATTTTGT
* *
37820275 TTTAGATTTATTTTAAG
1 TTTAAATTTATTTTAAA
*
37820292 TTTAAATTTGTTTTTAAA
1 TTTAAATTT-ATTTTAAA
*
37820310 TTTAAATTTATTTTAAG
1 TTTAAATTTATTTTAAA
* * *
37820327 TTTAAGTTTAAATTT-AT
1 TTTAAATTT-ATTTTAAA
37820344 TTTAAATTTATTCTTAAA
1 TTTAAATTTATT-TTAAA
**
37820362 TTTAAATTTATCCTAAA
1 TTTAAATTTATTTTAAA
37820379 TTTAAATT
1 TTTAAATT
37820387 AAAAATGTCC
Statistics
Matches: 78, Mismatches: 13, Indels: 8
0.79 0.13 0.08
Matches are distributed among these distances:
16 2 0.03
17 45 0.58
18 31 0.40
ACGTcount: A:0.36, C:0.03, G:0.04, T:0.57
Consensus pattern (17 bp):
TTTAAATTTATTTTAAA
Found at i:37820330 original size:11 final size:11
Alignment explanation
Indices: 37820310--37820365 Score: 76
Period size: 11 Copynumber: 4.9 Consensus size: 11
37820300 TGTTTTTAAA
37820310 TTTAAATTTAT
1 TTTAAATTTAT
* *
37820321 TTTAAGTTTAAG
1 TTTAAATTT-AT
37820333 TTTAAATTTAT
1 TTTAAATTTAT
37820344 TTTAAATTTAT
1 TTTAAATTTAT
37820355 TCTTAAATTTA
1 T-TTAAATTTA
37820366 AATTTATCCT
Statistics
Matches: 39, Mismatches: 4, Indels: 3
0.85 0.09 0.07
Matches are distributed among these distances:
11 21 0.54
12 18 0.46
ACGTcount: A:0.36, C:0.02, G:0.04, T:0.59
Consensus pattern (11 bp):
TTTAAATTTAT
Found at i:37820365 original size:23 final size:23
Alignment explanation
Indices: 37820304--37820353 Score: 82
Period size: 23 Copynumber: 2.2 Consensus size: 23
37820294 TAAATTTGTT
* *
37820304 TTTAAATTTAAATTTATTTTAAG
1 TTTAAGTTTAAATTTATTTTAAA
37820327 TTTAAGTTTAAATTTATTTTAAA
1 TTTAAGTTTAAATTTATTTTAAA
37820350 TTTA
1 TTTA
37820354 TTCTTAAATT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.38, C:0.00, G:0.04, T:0.58
Consensus pattern (23 bp):
TTTAAGTTTAAATTTATTTTAAA
Found at i:37820386 original size:6 final size:6
Alignment explanation
Indices: 37820304--37820371 Score: 61
Period size: 6 Copynumber: 11.7 Consensus size: 6
37820294 TAAATTTGTT
* * * *
37820304 TTTAAA TTTAAA TTT-AT TTTAAG TTTAAG TTTAAA TTT-AT TTTAAA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA
*
37820350 TTT-AT TCTTAAA TTTAAA TTTA
1 TTTAAA T-TTAAA TTTAAA TTTA
37820372 TCCTAAATTT
Statistics
Matches: 51, Mismatches: 7, Indels: 8
0.77 0.11 0.12
Matches are distributed among these distances:
5 10 0.20
6 39 0.76
7 2 0.04
ACGTcount: A:0.38, C:0.01, G:0.03, T:0.57
Consensus pattern (6 bp):
TTTAAA
Found at i:37825121 original size:24 final size:24
Alignment explanation
Indices: 37825084--37825131 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 24
37825074 CGATACAAGT
37825084 ACACAAACTACCGATACTT-CTAA
1 ACACAAACTACCGATACTTGCTAA
*
37825107 ACACATAATTACCGATACTTGCTAA
1 ACACA-AACTACCGATACTTGCTAA
37825132 TCAACTACTA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 5 0.23
24 13 0.59
25 4 0.18
ACGTcount: A:0.42, C:0.27, G:0.06, T:0.25
Consensus pattern (24 bp):
ACACAAACTACCGATACTTGCTAA
Found at i:37825854 original size:52 final size:52
Alignment explanation
Indices: 37825759--37826095 Score: 462
Period size: 52 Copynumber: 6.5 Consensus size: 52
37825749 ATTTTGTTTA
* * * * *
37825759 ATACTCACGATAACACATAGTCATTGAACCTTATAATCTGTAAAGGATTCAT
1 ATACTCACGATGACACGTAGTCATCGAACCTCATAATCCGTAAAGGATTCAT
** *
37825811 ATACTCACGATGACACGTAGTCATCGGGCCTCATATTCCGTAAAGGATTCAT
1 ATACTCACGATGACACGTAGTCATCGAACCTCATAATCCGTAAAGGATTCAT
* * * *
37825863 ATACTAATGATGACACATAGTCATCGAACCTCATAATCCATAAAGGATTCAT
1 ATACTCACGATGACACGTAGTCATCGAACCTCATAATCCGTAAAGGATTCAT
37825915 ATACTCACGATGACACGTAGTCATC-AGACCTCATAATCCGTAAAGGATTCAT
1 ATACTCACGATGACACGTAGTCATCGA-ACCTCATAATCCGTAAAGGATTCAT
* *
37825967 ATACTCATGATGACACGTAGTCATCGAACCTCATAATCCGTAAATGATTCAT
1 ATACTCACGATGACACGTAGTCATCGAACCTCATAATCCGTAAAGGATTCAT
* * *
37826019 ATACTCACGATGACACGTAGTCATC-AGACCTTATAATCCATAAAGAATTCAT
1 ATACTCACGATGACACGTAGTCATCGA-ACCTCATAATCCGTAAAGGATTCAT
* * *
37826071 ATACTCACAATGACACATAATCATC
1 ATACTCACGATGACACGTAGTCATC
37826096 AGACCCTTTT
Statistics
Matches: 253, Mismatches: 29, Indels: 6
0.88 0.10 0.02
Matches are distributed among these distances:
51 2 0.01
52 250 0.99
53 1 0.00
ACGTcount: A:0.36, C:0.23, G:0.13, T:0.27
Consensus pattern (52 bp):
ATACTCACGATGACACGTAGTCATCGAACCTCATAATCCGTAAAGGATTCAT
Found at i:37825939 original size:104 final size:104
Alignment explanation
Indices: 37825759--37826095 Score: 512
Period size: 104 Copynumber: 3.2 Consensus size: 104
37825749 ATTTTGTTTA
* * * * *
37825759 ATACTCACGATAACACATAGTCATTGAACCTTATAATCTGTAAAGGATTCATATACTCACGATGA
1 ATACTCATGATGACACATAGTCATCGAACCTCATAATCCGTAAAGGATTCATATACTCACGATGA
* * *
37825824 CACGTAGTCATCGGGCCTCATATTCCGTAAAGGATTCAT
66 CACGTAGTCATCAGACCTCATAATCCGTAAAGGATTCAT
* *
37825863 ATACTAATGATGACACATAGTCATCGAACCTCATAATCCATAAAGGATTCATATACTCACGATGA
1 ATACTCATGATGACACATAGTCATCGAACCTCATAATCCGTAAAGGATTCATATACTCACGATGA
37825928 CACGTAGTCATCAGACCTCATAATCCGTAAAGGATTCAT
66 CACGTAGTCATCAGACCTCATAATCCGTAAAGGATTCAT
* *
37825967 ATACTCATGATGACACGTAGTCATCGAACCTCATAATCCGTAAATGATTCATATACTCACGATGA
1 ATACTCATGATGACACATAGTCATCGAACCTCATAATCCGTAAAGGATTCATATACTCACGATGA
* * *
37826032 CACGTAGTCATCAGACCTTATAATCCATAAAGAATTCAT
66 CACGTAGTCATCAGACCTCATAATCCGTAAAGGATTCAT
** *
37826071 ATACTCACAATGACACATAATCATC
1 ATACTCATGATGACACATAGTCATC
37826096 AGACCCTTTT
Statistics
Matches: 212, Mismatches: 21, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
104 212 1.00
ACGTcount: A:0.36, C:0.23, G:0.13, T:0.27
Consensus pattern (104 bp):
ATACTCATGATGACACATAGTCATCGAACCTCATAATCCGTAAAGGATTCATATACTCACGATGA
CACGTAGTCATCAGACCTCATAATCCGTAAAGGATTCAT
Found at i:37831330 original size:2 final size:2
Alignment explanation
Indices: 37831323--37831379 Score: 80
Period size: 2 Copynumber: 29.0 Consensus size: 2
37831313 AGAATTTTGA
*
37831323 AT AT AT AT AT AT AT AT AT AT AT A- AT AT AT AT AT AT AT GT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
* *
37831364 GT AT GT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT
37831380 TACTAAATTG
Statistics
Matches: 48, Mismatches: 6, Indels: 2
0.86 0.11 0.04
Matches are distributed among these distances:
1 1 0.02
2 47 0.98
ACGTcount: A:0.46, C:0.00, G:0.05, T:0.49
Consensus pattern (2 bp):
AT
Found at i:37834776 original size:56 final size:56
Alignment explanation
Indices: 37834645--37834776 Score: 194
Period size: 56 Copynumber: 2.4 Consensus size: 56
37834635 ATAATAAACG
* * *
37834645 GGATAACGCTCTACTAGAGCCAAAATCAAGATAACGCTTTACCCGAGCCAAAATCA
1 GGATAACGCTCTACTCGAGCCAAAAACAAGATAACGCTCTACCCGAGCCAAAATCA
* *
37834701 GGATAATGCTCTACTCGAGCCAAAAACAAGTTAACGCTCTACCCGAG-CAAGAATCA
1 GGATAACGCTCTACTCGAGCCAAAAACAAGATAACGCTCTACCCGAGCCAA-AATCA
*
37834757 GGATAACGCTCTACCCGAGC
1 GGATAACGCTCTACTCGAGC
37834777 AAGATTCAGT
Statistics
Matches: 68, Mismatches: 7, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
55 3 0.04
56 65 0.96
ACGTcount: A:0.36, C:0.28, G:0.18, T:0.17
Consensus pattern (56 bp):
GGATAACGCTCTACTCGAGCCAAAAACAAGATAACGCTCTACCCGAGCCAAAATCA
Found at i:37834785 original size:28 final size:28
Alignment explanation
Indices: 37834645--37834776 Score: 167
Period size: 28 Copynumber: 4.7 Consensus size: 28
37834635 ATAATAAACG
**
37834645 GGATAACGCTCTACTAGAGCCAAAATCA
1 GGATAACGCTCTACCCGAGCCAAAATCA
* *
37834673 AGATAACGCTTTACCCGAGCCAAAATCA
1 GGATAACGCTCTACCCGAGCCAAAATCA
* * *
37834701 GGATAATGCTCTACTCGAGCCAAAAACA
1 GGATAACGCTCTACCCGAGCCAAAATCA
* *
37834729 AGTTAACGCTCTACCCGAG-CAAGAATCA
1 GGATAACGCTCTACCCGAGCCAA-AATCA
37834757 GGATAACGCTCTACCCGAGC
1 GGATAACGCTCTACCCGAGC
37834777 AAGATTCAGT
Statistics
Matches: 86, Mismatches: 16, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
27 3 0.03
28 83 0.97
ACGTcount: A:0.36, C:0.28, G:0.18, T:0.17
Consensus pattern (28 bp):
GGATAACGCTCTACCCGAGCCAAAATCA
Found at i:37834791 original size:28 final size:28
Alignment explanation
Indices: 37834648--37834802 Score: 127
Period size: 28 Copynumber: 5.5 Consensus size: 28
37834638 ATAAACGGGA
** * *
37834648 TAACGCTCTACTAGAGCCAA-AATCAAGA
1 TAACGCTCTACCCGAG-CAAGAATCAGGT
* *
37834676 TAACGCTTTACCCGAGCCAA-AATCAGGA
1 TAACGCTCTACCCGAG-CAAGAATCAGGT
* * * *
37834704 TAATGCTCTACTCGAGCCAA-AAACAAGT
1 TAACGCTCTACCCGAG-CAAGAATCAGGT
*
37834732 TAACGCTCTACCCGAGCAAGAATCAGGA
1 TAACGCTCTACCCGAGCAAGAATCAGGT
* *
37834760 TAACGCTCTACCCGAGCAAGATTCAGTT
1 TAACGCTCTACCCGAGCAAGAATCAGGT
**
37834788 TAACATTCTACCCGA
1 TAACGCTCTACCCGA
37834803 ACTAAGTTCA
Statistics
Matches: 106, Mismatches: 20, Indels: 2
0.83 0.16 0.02
Matches are distributed among these distances:
27 3 0.03
28 103 0.97
ACGTcount: A:0.36, C:0.28, G:0.16, T:0.20
Consensus pattern (28 bp):
TAACGCTCTACCCGAGCAAGAATCAGGT
Found at i:37834834 original size:27 final size:28
Alignment explanation
Indices: 37834794--37834861 Score: 84
Period size: 28 Copynumber: 2.5 Consensus size: 28
37834784 AGTTTAACAT
* *
37834794 TCTACCCGAACTAAGTTCA-ATTATAGC
1 TCTATCCGAGCTAAGTTCAGATTATAGC
* *
37834821 TCTATTCGAGCTAAGTTCAGATTATCGC
1 TCTATCCGAGCTAAGTTCAGATTATAGC
*
37834849 TTTATCCGAGCTA
1 TCTATCCGAGCTA
37834862 GAATCAAAAT
Statistics
Matches: 34, Mismatches: 6, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
27 16 0.47
28 18 0.53
ACGTcount: A:0.28, C:0.24, G:0.15, T:0.34
Consensus pattern (28 bp):
TCTATCCGAGCTAAGTTCAGATTATAGC
Found at i:37840090 original size:30 final size:30
Alignment explanation
Indices: 37840049--37840290 Score: 265
Period size: 30 Copynumber: 8.1 Consensus size: 30
37840039 AAAACAAAAA
*
37840049 TTTTAGAAAGTTTAGGGGTTAAAATGTAAT
1 TTTTAGAAAGTTTAAGGGTTAAAATGTAAT
* * *
37840079 TTTCAAAAAG-TTAAGGGGTTAAAAAGTAAT
1 TTTTAGAAAGTTTAA-GGGTTAAAATGTAAT
*
37840109 TTTTAGAAAGTTTAAGGGTTAAAATGCAAT
1 TTTTAGAAAGTTTAAGGGTTAAAATGTAAT
* * * *
37840139 TTTCAAAAAGTTTAGGGGTTAAAAAGTAAT
1 TTTTAGAAAGTTTAAGGGTTAAAATGTAAT
*
37840169 TTTTAGAAAGTTTAAGGGTTAAAATGCAAT
1 TTTTAGAAAGTTTAAGGGTTAAAATGTAAT
* * * *
37840199 TTTTAGAAAG-TTAAGTGCTAGAATGAAAT
1 TTTTAGAAAGTTTAAGGGTTAAAATGTAAT
* * *
37840228 TTTTAAAAAGTTTGAGGGTT-AAATTTGAAT
1 TTTTAGAAAGTTTAAGGGTTAAAATGT-AAT
* **
37840258 TTTTGGAAAGTTTAAGGGTTAAAACATAAT
1 TTTTAGAAAGTTTAAGGGTTAAAATGTAAT
37840288 TTT
1 TTT
37840291 AAAATAAAAT
Statistics
Matches: 173, Mismatches: 34, Indels: 10
0.80 0.16 0.05
Matches are distributed among these distances:
29 30 0.17
30 135 0.78
31 8 0.05
ACGTcount: A:0.40, C:0.02, G:0.20, T:0.37
Consensus pattern (30 bp):
TTTTAGAAAGTTTAAGGGTTAAAATGTAAT
Found at i:37840289 original size:89 final size:89
Alignment explanation
Indices: 37840046--37840290 Score: 277
Period size: 89 Copynumber: 2.7 Consensus size: 89
37840036 GTCAAAACAA
* * * *
37840046 AAATTTT-AGAAAGTTTAGGGGTTAAAATGTAATTTTCAAAAAG-TTAAGGGGTTAAAAAGTAAT
1 AAATTTTCAAAAAGTTTAGGGGTTAAAAAGTAATTTTTAGAAAGTTTAA-GGGTTAAAAA-TAAT
*
37840109 TTTTAGAAAGTTTAAGGGTTAAAATG
64 TTTTAGAAAGTTTAAGGGCTAAAATG
*
37840135 CAATTTTCAAAAAGTTTAGGGGTTAAAAAGTAATTTTTAGAAAGTTTAAGGGTT-AAAATGCAAT
1 AAATTTTCAAAAAGTTTAGGGGTTAAAAAGTAATTTTTAGAAAGTTTAAGGGTTAAAAAT--AAT
* *
37840199 TTTTAGAAAG-TTAAGTGCTAGAATG
64 TTTTAGAAAGTTTAAGGGCTAAAATG
* ** *
37840224 AAATTTTTAAAAAGTTT-GAGGGTT-AAATTTGAATTTTTGGAAAGTTTAAGGGTTAAAACATAA
1 AAATTTTCAAAAAGTTTAG-GGGTTAAAAAGT-AATTTTTAGAAAGTTTAAGGGTTAAAA-ATAA
37840287 TTTT
63 TTTT
37840291 AAAATAAAAT
Statistics
Matches: 135, Mismatches: 13, Indels: 16
0.82 0.08 0.10
Matches are distributed among these distances:
88 6 0.04
89 70 0.52
90 53 0.39
91 6 0.04
ACGTcount: A:0.41, C:0.02, G:0.20, T:0.37
Consensus pattern (89 bp):
AAATTTTCAAAAAGTTTAGGGGTTAAAAAGTAATTTTTAGAAAGTTTAAGGGTTAAAAATAATTT
TTAGAAAGTTTAAGGGCTAAAATG
Found at i:37841742 original size:42 final size:42
Alignment explanation
Indices: 37841683--37841964 Score: 303
Period size: 42 Copynumber: 6.9 Consensus size: 42
37841673 AAGATGGTAG
* * *
37841683 CTTCAATTTGCCCCATGATCGTGGTAAGAGATTGGATGAGGT
1 CTTCAATCTGCCCCATGATCGGGGTAAGAGATTGGATGATGT
* *
37841725 CTTCAATCTGCCCCATGATCGGGGTAAGAGATTGGATGTTAT
1 CTTCAATCTGCCCCATGATCGGGGTAAGAGATTGGATGATGT
* * * ** ** * *
37841767 CTTTAATTTTCCCTTTGATTAGAGTAAAAGATT-G--GATG-
1 CTTCAATCTGCCCCATGATCGGGGTAAGAGATTGGATGATGT
*
37841805 CTTCAATCTGCCCCATGATCGGGGTAAGAGATTGAATGATGT
1 CTTCAATCTGCCCCATGATCGGGGTAAGAGATTGGATGATGT
* *
37841847 CTTCAATCTGCCCCATGATCGAGGTAAAAGATTGGATGATGT
1 CTTCAATCTGCCCCATGATCGGGGTAAGAGATTGGATGATGT
** *
37841889 CTTCAATCTGCCCTC-TGATTAGGGTAAAAGATT-G--GATG-
1 CTTCAATCTGCCC-CATGATCGGGGTAAGAGATTGGATGATGT
*
37841927 CTTCAATCTACCCCATGATCGGGGTAAGAGATTGGATG
1 CTTCAATCTGCCCCATGATCGGGGTAAGAGATTGGATG
37841965 GTAGCTTTGT
Statistics
Matches: 195, Mismatches: 36, Indels: 19
0.78 0.14 0.08
Matches are distributed among these distances:
37 1 0.01
38 51 0.26
39 7 0.04
41 7 0.04
42 128 0.66
43 1 0.01
ACGTcount: A:0.26, C:0.18, G:0.25, T:0.31
Consensus pattern (42 bp):
CTTCAATCTGCCCCATGATCGGGGTAAGAGATTGGATGATGT
Found at i:37841908 original size:122 final size:122
Alignment explanation
Indices: 37841682--37841960 Score: 432
Period size: 122 Copynumber: 2.3 Consensus size: 122
37841672 TAAGATGGTA
* * * *
37841682 GCTTCAATTTGCCCCATGATCGTGGTAAGAGATTGGATGAGGTCTTCAATCTGCCCCATGATCGG
1 GCTTCAATCTGCCCCATGATCGGGGTAAGAGATTGAATGAGGTCTTCAATCTGCCCCATGATCGA
* * * * * *
37841747 GGTAAGAGATTGGATGTTATCTTTAATTTTCCCTTTGATTAGAGTAAAAGATTGGAT
66 GGTAAAAGATTGGATGATATCTTCAATCTGCCCTCTGATTAGAGTAAAAGATTGGAT
*
37841804 GCTTCAATCTGCCCCATGATCGGGGTAAGAGATTGAATGATGTCTTCAATCTGCCCCATGATCGA
1 GCTTCAATCTGCCCCATGATCGGGGTAAGAGATTGAATGAGGTCTTCAATCTGCCCCATGATCGA
* *
37841869 GGTAAAAGATTGGATGATGTCTTCAATCTGCCCTCTGATTAGGGTAAAAGATTGGAT
66 GGTAAAAGATTGGATGATATCTTCAATCTGCCCTCTGATTAGAGTAAAAGATTGGAT
*
37841926 GCTTCAATCTACCCCATGATCGGGGTAAGAGATTG
1 GCTTCAATCTGCCCCATGATCGGGGTAAGAGATTG
37841961 GATGGTAGCT
Statistics
Matches: 143, Mismatches: 14, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
122 143 1.00
ACGTcount: A:0.26, C:0.18, G:0.25, T:0.31
Consensus pattern (122 bp):
GCTTCAATCTGCCCCATGATCGGGGTAAGAGATTGAATGAGGTCTTCAATCTGCCCCATGATCGA
GGTAAAAGATTGGATGATATCTTCAATCTGCCCTCTGATTAGAGTAAAAGATTGGAT
Found at i:37841963 original size:80 final size:81
Alignment explanation
Indices: 37841683--37841964 Score: 297
Period size: 80 Copynumber: 3.5 Consensus size: 81
37841673 AAGATGGTAG
* * * *
37841683 CTTCAATTTGCCCCATGATCGTGGTAAGAGATTGGATGAGGTCTTCAATCTGCCCCATGATCGGG
1 CTTCAATCTGCCCCATGATCGGGGTAAAAGATTGGATGATGTCTTCAATCTGCCCCATGATCGGG
37841748 GTAAGAGATTGGATGTTAT
66 GTAAGAGATTGGATG---T
* * * ** ** *
37841767 CTTTAATTTTCCCTTTGATTAGAGTAAAAGATT-G--GATG-CTTCAATCTGCCCCATGATCGGG
1 CTTCAATCTGCCCCATGATCGGGGTAAAAGATTGGATGATGTCTTCAATCTGCCCCATGATCGGG
37841828 GTAAGAGATTGAATGATGT
66 GTAAGAGATTG---GATGT
* **
37841847 CTTCAATCTGCCCCATGATCGAGGTAAAAGATTGGATGATGTCTTCAATCTGCCCTC-TGATTAG
1 CTTCAATCTGCCCCATGATCGGGGTAAAAGATTGGATGATGTCTTCAATCTGCCC-CATGATCGG
*
37841911 GGTAAAAGATTGGATG-
65 GGTAAGAGATTGGATGT
* *
37841927 CTTCAATCTACCCCATGATCGGGGTAAGAGATTGGATG
1 CTTCAATCTGCCCCATGATCGGGGTAAAAGATTGGATG
37841965 GTAGCTTTGT
Statistics
Matches: 165, Mismatches: 25, Indels: 20
0.79 0.12 0.10
Matches are distributed among these distances:
80 94 0.57
81 8 0.05
83 9 0.05
84 53 0.32
85 1 0.01
ACGTcount: A:0.26, C:0.18, G:0.25, T:0.31
Consensus pattern (81 bp):
CTTCAATCTGCCCCATGATCGGGGTAAAAGATTGGATGATGTCTTCAATCTGCCCCATGATCGGG
GTAAGAGATTGGATGT
Found at i:37842349 original size:49 final size:49
Alignment explanation
Indices: 37842166--37842508 Score: 213
Period size: 49 Copynumber: 7.0 Consensus size: 49
37842156 CAATCTGCTT
* * * * * *
37842166 CATCTTTATGGTATAAGATTCGCCATTGCGACCTCAATCTTTCCCTTCA
1 CATCTTTAGGGTACAAGATTCACCGTTGCGGCCTCAACCTTTCCCTTCA
* * * ** * * * *
37842215 CATCTCTAGGGTATAAGGTTTGCTGTTACAGCCTCGACCTTTCCCTTCA
1 CATCTTTAGGGTACAAGATTCACCGTTGCGGCCTCAACCTTTCCCTTCA
* * ** * * * *
37842264 CGTCTTTAGGGTTCAAGATTCGTCATTGCGGTCTCAACCTTTTCTTTCA
1 CATCTTTAGGGTACAAGATTCACCGTTGCGGCCTCAACCTTTCCCTTCA
* * * *
37842313 CATCTTTAGGGTACAAGATTTACCGTTGTGGCCTCAATCTTTCCCTTCG
1 CATCTTTAGGGTACAAGATTCACCGTTGCGGCCTCAACCTTTCCCTTCA
* * * * * * * **
37842362 TAT-TTCTAAGGTATAAGGTTCACTGTTGCGGCTTCAATCTTTCCGATCA
1 CATCTT-TAGGGTACAAGATTCACCGTTGCGGCCTCAACCTTTCCCTTCA
* * * * * *
37842411 CATGTCTAAGGTACAAGGTTCACCGTTGCGGCTTCAACCTTTCCTTTCA
1 CATCTTTAGGGTACAAGATTCACCGTTGCGGCCTCAACCTTTCCCTTCA
* * ** * * *
37842460 TATCTCTAGGGTATC-AGATTTGCCGTTGCGGCTTTAATCTTTCCCTTCA
1 CATCTTTAGGGTA-CAAGATTCACCGTTGCGGCCTCAACCTTTCCCTTCA
37842509 AACCTGTAGA
Statistics
Matches: 226, Mismatches: 65, Indels: 6
0.76 0.22 0.02
Matches are distributed among these distances:
48 2 0.01
49 222 0.98
50 2 0.01
ACGTcount: A:0.19, C:0.26, G:0.17, T:0.37
Consensus pattern (49 bp):
CATCTTTAGGGTACAAGATTCACCGTTGCGGCCTCAACCTTTCCCTTCA
Found at i:37843102 original size:112 final size:112
Alignment explanation
Indices: 37842896--37843117 Score: 347
Period size: 112 Copynumber: 2.0 Consensus size: 112
37842886 CCTTATATCG
*
37842896 TTAGACCACTAACTGTCATTTCAATGCAAAAATGCTTGAACAGGGTTGTAAGGTGGATAAAATTA
1 TTAGACCACTAACTGTCATTTCAATGCAAAAATGCTTGAACAAGGTTGTAAGGTGGATAAAATTA
* * * *
37842961 TATTTTATTGGAGGTAAAGCTCGCGTGAATGAAAAGATTAAAAATAA
66 TATTTTATTAGAGGCAAAGCTCACATGAATGAAAAGATTAAAAATAA
* * **
37843008 TTAGTCCACTAACTGTTATTTCAATGCAAACGTGCTTGAACAAGGTTGTAAGGTGGATAAAATTG
1 TTAGACCACTAACTGTCATTTCAATGCAAAAATGCTTGAACAAGGTTGTAAGGTGGATAAAATT-
37843073 A-ATTTTATTAGAGGCAAAGCTCACATGAATGAAAAGATTAAAAAT
65 ATATTTTATTAGAGGCAAAGCTCACATGAATGAAAAGATTAAAAAT
37843118 GACAAACATT
Statistics
Matches: 100, Mismatches: 9, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
112 99 0.99
113 1 0.01
ACGTcount: A:0.39, C:0.11, G:0.20, T:0.30
Consensus pattern (112 bp):
TTAGACCACTAACTGTCATTTCAATGCAAAAATGCTTGAACAAGGTTGTAAGGTGGATAAAATTA
TATTTTATTAGAGGCAAAGCTCACATGAATGAAAAGATTAAAAATAA
Found at i:37843437 original size:7 final size:7
Alignment explanation
Indices: 37843425--37843467 Score: 50
Period size: 7 Copynumber: 5.7 Consensus size: 7
37843415 CCTTAACCTC
37843425 TCTTTTT
1 TCTTTTT
37843432 TCTTTTTCT
1 TC-TTTT-T
*
37843441 TCTCTTT
1 TCTTTTT
37843448 TCTTTTT
1 TCTTTTT
37843455 TCTTCTTT
1 TCTT-TTT
37843463 TCTTT
1 TCTTT
37843468 CTGTCCCCTT
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
7 14 0.45
8 14 0.45
9 3 0.10
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (7 bp):
TCTTTTT
Found at i:37843460 original size:20 final size:18
Alignment explanation
Indices: 37843423--37843469 Score: 62
Period size: 17 Copynumber: 2.7 Consensus size: 18
37843413 CACCTTAACC
37843423 TCTCTTTTTTCTTTTTCT
1 TCTCTTTTTTCTTTTTCT
*
37843441 TCTCTTTTCT-TTTTTCT
1 TCTCTTTTTTCTTTTTCT
37843458 TCT-TTTCTTTCT
1 TCTCTTT-TTTCT
37843470 GTCCCCTTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
16 3 0.12
17 12 0.48
18 10 0.40
ACGTcount: A:0.00, C:0.23, G:0.00, T:0.77
Consensus pattern (18 bp):
TCTCTTTTTTCTTTTTCT
Found at i:37844464 original size:63 final size:62
Alignment explanation
Indices: 37844351--37844469 Score: 186
Period size: 63 Copynumber: 1.9 Consensus size: 62
37844341 ATACACAAAT
* *
37844351 TTTCAAAATGCCCTTTGCGGGTTTTCATCTTGACCTTTTGTTTCTTTTTTTTCTTTCTCTAGG
1 TTTCAAAATGCCCTTTGCGGGTTTTCATCTTGACCTTTTCTTTCTCTTTTTT-TTTCTCTAGG
*
37844414 TTTCAAAATGCCCTTTGCGGGTTTTCATCTTGACTTTTTCTTTAC-CTTTTTTTTTC
1 TTTCAAAATGCCCTTTGCGGGTTTTCATCTTGACCTTTTCTTT-CTCTTTTTTTTTC
37844470 AGGTCTCCTT
Statistics
Matches: 52, Mismatches: 3, Indels: 3
0.90 0.05 0.05
Matches are distributed among these distances:
62 4 0.08
63 47 0.90
64 1 0.02
ACGTcount: A:0.12, C:0.21, G:0.13, T:0.55
Consensus pattern (62 bp):
TTTCAAAATGCCCTTTGCGGGTTTTCATCTTGACCTTTTCTTTCTCTTTTTTTTTCTCTAGG
Found at i:37856149 original size:33 final size:33
Alignment explanation
Indices: 37856112--37856214 Score: 125
Period size: 33 Copynumber: 3.0 Consensus size: 33
37856102 GAAAGTTGGG
*
37856112 AATGTATTAGAGATTCAATTATAATATGATTTA
1 AATGTATTGGAGATTCAATTATAATATGATTTA
*
37856145 AATGTATTGGAGATTCAATTATAATATTATATGTTTTA
1 AATGTATTGGAGATTCAA-T-T-ATA--ATATGATTTA
* *
37856183 AATGTAATGGAGATTTAATTATAATATGATTT
1 AATGTATTGGAGATTCAATTATAATATGATTT
37856215 GTGATTACTA
Statistics
Matches: 60, Mismatches: 5, Indels: 10
0.80 0.07 0.13
Matches are distributed among these distances:
33 25 0.42
34 1 0.02
35 4 0.07
36 4 0.07
37 1 0.02
38 25 0.42
ACGTcount: A:0.40, C:0.02, G:0.14, T:0.45
Consensus pattern (33 bp):
AATGTATTGGAGATTCAATTATAATATGATTTA
Found at i:37856183 original size:38 final size:37
Alignment explanation
Indices: 37856112--37856209 Score: 123
Period size: 38 Copynumber: 2.7 Consensus size: 37
37856102 GAAAGTTGGG
*
37856112 AATGTATTAGAGATTCAA-T-T-ATA-ATATGATTTA
1 AATGTATTGGAGATTCAATTATAATATATATGATTTA
*
37856145 AATGTATTGGAGATTCAATTATAATATTATATGTTTTA
1 AATGTATTGGAGATTCAATTATAATA-TATATGATTTA
* *
37856183 AATGTAATGGAGATTTAATTATAATAT
1 AATGTATTGGAGATTCAATTATAATAT
37856210 GATTTGTGAT
Statistics
Matches: 56, Mismatches: 4, Indels: 6
0.85 0.06 0.09
Matches are distributed among these distances:
33 17 0.30
34 1 0.02
35 1 0.02
36 3 0.05
37 1 0.02
38 33 0.59
ACGTcount: A:0.41, C:0.02, G:0.13, T:0.44
Consensus pattern (37 bp):
AATGTATTGGAGATTCAATTATAATATATATGATTTA
Found at i:37861257 original size:56 final size:56
Alignment explanation
Indices: 37861180--37861309 Score: 190
Period size: 56 Copynumber: 2.3 Consensus size: 56
37861170 ATAAAATGGA
* * *
37861180 ATAACGCTCTACTAGAGCCAAAATCAAGATAACGCTTTACCCGAGCCAA-AATCAGG
1 ATAACGCTCTACTCGAGCCAAAAACAAGATAACGCTCTACCCGAG-CAAGAATCAGG
* *
37861236 ATAATGCTCTACTCGAGCCAAAAACAAGTTAACGCTCTACCCGAGCAAGAATCAGG
1 ATAACGCTCTACTCGAGCCAAAAACAAGATAACGCTCTACCCGAGCAAGAATCAGG
*
37861292 ATAACGCTCTACCCGAGC
1 ATAACGCTCTACTCGAGC
37861310 AAGATTCAGT
Statistics
Matches: 66, Mismatches: 7, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
55 3 0.05
56 63 0.95
ACGTcount: A:0.37, C:0.28, G:0.17, T:0.18
Consensus pattern (56 bp):
ATAACGCTCTACTCGAGCCAAAAACAAGATAACGCTCTACCCGAGCAAGAATCAGG
Found at i:37861318 original size:28 final size:28
Alignment explanation
Indices: 37861180--37861309 Score: 163
Period size: 28 Copynumber: 4.6 Consensus size: 28
37861170 ATAAAATGGA
** *
37861180 ATAACGCTCTACTAGAGCCAAAATCAAG
1 ATAACGCTCTACCCGAGCCAAAATCAGG
*
37861208 ATAACGCTTTACCCGAGCCAAAATCAGG
1 ATAACGCTCTACCCGAGCCAAAATCAGG
* * * *
37861236 ATAATGCTCTACTCGAGCCAAAAACAAG
1 ATAACGCTCTACCCGAGCCAAAATCAGG
*
37861264 TTAACGCTCTACCCGAG-CAAGAATCAGG
1 ATAACGCTCTACCCGAGCCAA-AATCAGG
37861292 ATAACGCTCTACCCGAGC
1 ATAACGCTCTACCCGAGC
37861310 AAGATTCAGT
Statistics
Matches: 85, Mismatches: 15, Indels: 3
0.83 0.15 0.03
Matches are distributed among these distances:
27 3 0.04
28 82 0.96
ACGTcount: A:0.37, C:0.28, G:0.17, T:0.18
Consensus pattern (28 bp):
ATAACGCTCTACCCGAGCCAAAATCAGG
Found at i:37861324 original size:28 final size:28
Alignment explanation
Indices: 37861264--37861395 Score: 126
Period size: 28 Copynumber: 4.7 Consensus size: 28
37861254 CAAAAACAAG
*
37861264 TTAACGCTCTACCCGAGC-AAGAATCAGGA
1 TTAACGCTCTACCCGAGCTAAG-TTCA-GA
*
37861293 -TAACGCTCTACCCGAGC-AAGATTCAGT
1 TTAACGCTCTACCCGAGCTAAG-TTCAGA
** *
37861320 TTAACATTCTACCCGAACTAAGTTCAGA
1 TTAACGCTCTACCCGAGCTAAGTTCAGA
* **
37861348 TTATCGCTCTATTCGAGCTAAGTTCAGA
1 TTAACGCTCTACCCGAGCTAAGTTCAGA
* *
37861376 TTATCGCTCTATCCGAGCTA
1 TTAACGCTCTACCCGAGCTA
37861396 GAATCAAAAT
Statistics
Matches: 88, Mismatches: 13, Indels: 5
0.83 0.12 0.05
Matches are distributed among these distances:
27 1 0.01
28 84 0.95
29 3 0.03
ACGTcount: A:0.30, C:0.27, G:0.17, T:0.27
Consensus pattern (28 bp):
TTAACGCTCTACCCGAGCTAAGTTCAGA
Found at i:37861324 original size:56 final size:55
Alignment explanation
Indices: 37861180--37861401 Score: 159
Period size: 56 Copynumber: 4.0 Consensus size: 55
37861170 ATAAAATGGA
* * * *
37861180 ATAACGCTCTACTAGAGCCAA-AATCAAGATAACGCTTTACCCGAGCCAA-AATCAGG
1 ATAACGCTCTACTCGAG-CAAGATTC-AGTTAACGCTCTACCCGAG-CAAGAATCAGG
* **
37861236 ATAATGCTCTACTCGAGCCAA-AAACAAGTTAACGCTCTACCCGAGCAAGAATCAGG
1 ATAACGCTCTACTCGAG-CAAGATTC-AGTTAACGCTCTACCCGAGCAAGAATCAGG
* ** * *
37861292 ATAACGCTCTACCCGAGCAAGATTCAGTTTAACATTCTACCCGAACTAAG-TTCA-G
1 ATAACGCTCTACTCGAGCAAGATTCAG-TTAACGCTCTACCCGAGC-AAGAATCAGG
* * * * *
37861347 ATTATCGCTCTATTCGAGCTAAG-TTCAGATTATCGCTCTATCCGAGCTAGAATCA
1 A-TAACGCTCTACTCGAGC-AAGATTCAG-TTAACGCTCTACCCGAGCAAGAATCA
37861402 AAATATTACT
Statistics
Matches: 135, Mismatches: 24, Indels: 14
0.78 0.14 0.08
Matches are distributed among these distances:
55 12 0.09
56 117 0.87
57 6 0.04
ACGTcount: A:0.34, C:0.26, G:0.16, T:0.23
Consensus pattern (55 bp):
ATAACGCTCTACTCGAGCAAGATTCAGTTAACGCTCTACCCGAGCAAGAATCAGG
Found at i:37866620 original size:30 final size:30
Alignment explanation
Indices: 37866585--37866764 Score: 179
Period size: 30 Copynumber: 6.1 Consensus size: 30
37866575 AAAATTTTGG
*
37866585 AAAGTTTAGGGGTTAAAATGTAATTTTCAA
1 AAAGTTTAGGGGTTAAAATGTAATTTTTAA
* *
37866615 AAAGTTTAGGGGTTAAAAAGTAATTTTTAG
1 AAAGTTTAGGGGTTAAAATGTAATTTTTAA
* * *
37866645 AAAGTTTAAGGGTTAAAATGCAATTTTTAG
1 AAAGTTTAGGGGTTAAAATGTAATTTTTAA
* * * *
37866675 AAAG-TTAAGGGCTAGAATGAAATTTTTAA
1 AAAGTTTAGGGGTTAAAATGTAATTTTTAA
* **
37866704 AAAGTTT-GAGGGTT-AAATTTGAATTTTTGG
1 AAAGTTTAG-GGGTTAAAATGT-AATTTTTAA
**
37866734 AAAGTTTAGGGGTTAAAACATAA-TTTTAA
1 AAAGTTTAGGGGTTAAAATGTAATTTTTAA
37866763 AA
1 AA
37866765 TAAAATAAGG
Statistics
Matches: 124, Mismatches: 21, Indels: 11
0.79 0.13 0.07
Matches are distributed among these distances:
29 34 0.27
30 85 0.69
31 5 0.04
ACGTcount: A:0.41, C:0.02, G:0.21, T:0.36
Consensus pattern (30 bp):
AAAGTTTAGGGGTTAAAATGTAATTTTTAA
Found at i:37866658 original size:60 final size:60
Alignment explanation
Indices: 37866579--37866760 Score: 199
Period size: 60 Copynumber: 3.0 Consensus size: 60
37866569 AAAACCAAAA
* * * *
37866579 TTTTGGAAAGTTTAGGGGTTAAAATGTAATTTTCAAAAAGTTTAGGGGTTAAAAAGTAAT
1 TTTTAGAAAGTTTAAGGGTTAAAATGTAATTTTTAGAAAGTTTAGGGGTTAAAAAGTAAT
* * * * * *
37866639 TTTTAGAAAGTTTAAGGGTTAAAATGCAATTTTTAGAAAG-TTAAGGGCTAGAATGAAAT
1 TTTTAGAAAGTTTAAGGGTTAAAATGTAATTTTTAGAAAGTTTAGGGGTTAAAAAGTAAT
* * * *
37866698 TTTTAAAAAGTTTGAGGGTT-AAATTTGAATTTTTGGAAAGTTTAGGGGTTAAAACA-TAAT
1 TTTTAGAAAGTTTAAGGGTTAAAATGT-AATTTTTAGAAAGTTTAGGGGTTAAAA-AGTAAT
37866758 TTT
1 TTT
37866761 AAAATAAAAT
Statistics
Matches: 99, Mismatches: 20, Indels: 6
0.79 0.16 0.05
Matches are distributed among these distances:
58 4 0.04
59 44 0.44
60 51 0.52
ACGTcount: A:0.38, C:0.02, G:0.22, T:0.38
Consensus pattern (60 bp):
TTTTAGAAAGTTTAAGGGTTAAAATGTAATTTTTAGAAAGTTTAGGGGTTAAAAAGTAAT
Found at i:37866761 original size:59 final size:59
Alignment explanation
Indices: 37866585--37866764 Score: 188
Period size: 59 Copynumber: 3.0 Consensus size: 59
37866575 AAAATTTTGG
* * * * *
37866585 AAAGTTTAGGGGTTAAAATGTAATTTTCAAAAAGTTTAGGGGTTAAAAAGTAATTTTTAG
1 AAAGTTTAAGGGTTAAAATGCAATTTTTAGAAAGTTTAGGGGTTAAAAA-TAATTTTTAA
* * *
37866645 AAAGTTTAAGGGTTAAAATGCAATTTTTAGAAAG-TTAAGGGCT-AGAATGAAATTTTTAA
1 AAAGTTTAAGGGTTAAAATGCAATTTTTAGAAAGTTTAGGGGTTAAAAAT--AATTTTTAA
* * *
37866704 AAAGTTTGAGGGTTAAATTTG-AATTTTTGGAAAGTTTAGGGGTTAAAACATAA-TTTTAA
1 AAAGTTTAAGGGTTAAA-ATGCAATTTTTAGAAAGTTTAGGGGTTAAAA-ATAATTTTTAA
37866763 AA
1 AA
37866765 TAAAATAAGG
Statistics
Matches: 100, Mismatches: 14, Indels: 13
0.79 0.11 0.10
Matches are distributed among these distances:
57 1 0.01
58 3 0.03
59 51 0.51
60 41 0.41
61 2 0.02
62 2 0.02
ACGTcount: A:0.41, C:0.02, G:0.21, T:0.36
Consensus pattern (59 bp):
AAAGTTTAAGGGTTAAAATGCAATTTTTAGAAAGTTTAGGGGTTAAAAATAATTTTTAA
Found at i:37868207 original size:42 final size:42
Alignment explanation
Indices: 37868148--37868429 Score: 294
Period size: 42 Copynumber: 6.9 Consensus size: 42
37868138 AAGATGGTAG
* * *
37868148 CTTCAATTTGCCCCATGATCGTGGTAAGAGATTGGATGAGGT
1 CTTCAATCTGCCCCATGATCGGGGTAAGAGATTGGATGATGT
* * *
37868190 CTTCAATCCGCCCCATGATCGGGGTAAGAGATTGGATGTTAT
1 CTTCAATCTGCCCCATGATCGGGGTAAGAGATTGGATGATGT
* * * ** ** * *
37868232 CTTTAATTTTCCCTTTGATTAGAGTAAAAGATT-G--GATG-
1 CTTCAATCTGCCCCATGATCGGGGTAAGAGATTGGATGATGT
*
37868270 CTTCAATCTGCCCCATGATCGGGGTAAGAGATTGAATGATGT
1 CTTCAATCTGCCCCATGATCGGGGTAAGAGATTGGATGATGT
* *
37868312 CTTCAATCTGCCTCATGATCGGGGTAAAAGATTGGATGATGT
1 CTTCAATCTGCCCCATGATCGGGGTAAGAGATTGGATGATGT
** *
37868354 CTTCAATCTGCCCTC-TGATTAGGGTAAAAGATT-G--GATG-
1 CTTCAATCTGCCC-CATGATCGGGGTAAGAGATTGGATGATGT
*
37868392 CTTCAATCTACCCCATGATCGGGGTAAGAGATTGGATG
1 CTTCAATCTGCCCCATGATCGGGGTAAGAGATTGGATG
37868430 GTAGCTTTGT
Statistics
Matches: 193, Mismatches: 38, Indels: 19
0.77 0.15 0.08
Matches are distributed among these distances:
37 1 0.01
38 51 0.26
39 7 0.04
41 7 0.04
42 126 0.65
43 1 0.01
ACGTcount: A:0.26, C:0.18, G:0.25, T:0.31
Consensus pattern (42 bp):
CTTCAATCTGCCCCATGATCGGGGTAAGAGATTGGATGATGT
Found at i:37868339 original size:80 final size:80
Alignment explanation
Indices: 37868148--37868429 Score: 268
Period size: 80 Copynumber: 3.5 Consensus size: 80
37868138 AAGATGGTAG
* * * *
37868148 CTTCAATTTGCCCCATGATCGTGGTAAGAGATTGGATGAGGTCTTCAATCCGCCCCATGATCGGG
1 CTTCAATCTGCCCCATGATCGGGGTAAAAGATTGGAT---GTCTTCAATCTGCCCCATGATCGGG
* *
37868213 GTAAGAGATTGGATGTTAT
63 GTAAGAGATT-GATGATGT
* * * ** ** *
37868232 CTTTAATTTTCCCTTTGATTAGAGTAAAAGATTGGATG-CTTCAATCTGCCCCATGATCGGGGTA
1 CTTCAATCTGCCCCATGATCGGGGTAAAAGATTGGATGTCTTCAATCTGCCCCATGATCGGGGTA
37868296 AGAGATTGAATGATGT
66 AGAGATTG-ATGATGT
* **
37868312 CTTCAATCTGCCTCATGATCGGGGTAAAAGATTGGATGATGTCTTCAATCTGCCCTC-TGATTAG
1 CTTCAATCTGCCCCATGATCGGGGTAAAAGATT-G--GATGTCTTCAATCTGCCC-CATGATCGG
*
37868376 GGTAAAAGATTG--GATG-
62 GGTAAGAGATTGATGATGT
* *
37868392 CTTCAATCTACCCCATGATCGGGGTAAGAGATTGGATG
1 CTTCAATCTGCCCCATGATCGGGGTAAAAGATTGGATG
37868430 GTAGCTTTGT
Statistics
Matches: 165, Mismatches: 27, Indels: 19
0.78 0.13 0.09
Matches are distributed among these distances:
77 4 0.02
79 2 0.01
80 91 0.55
81 6 0.04
83 4 0.02
84 57 0.35
85 1 0.01
ACGTcount: A:0.26, C:0.18, G:0.25, T:0.31
Consensus pattern (80 bp):
CTTCAATCTGCCCCATGATCGGGGTAAAAGATTGGATGTCTTCAATCTGCCCCATGATCGGGGTA
AGAGATTGATGATGT
Found at i:37868373 original size:122 final size:122
Alignment explanation
Indices: 37868147--37868425 Score: 423
Period size: 122 Copynumber: 2.3 Consensus size: 122
37868137 TAAGATGGTA
* * *
37868147 GCTTCAATTTGCCCCATGATCGTGGTAAGAGATTGGATGAGGTCTTCAATCCGCCCCATGATCGG
1 GCTTCAATCTGCCCCATGATCGGGGTAAGAGATTGAATGAGGTCTTCAATCCGCCCCATGATCGG
* * * * * *
37868212 GGTAAGAGATTGGATGTTATCTTTAATTTTCCCTTTGATTAGAGTAAAAGATTGGAT
66 GGTAAAAGATTGGATGATATCTTCAATCTGCCCTCTGATTAGAGTAAAAGATTGGAT
* * *
37868269 GCTTCAATCTGCCCCATGATCGGGGTAAGAGATTGAATGATGTCTTCAATCTGCCTCATGATCGG
1 GCTTCAATCTGCCCCATGATCGGGGTAAGAGATTGAATGAGGTCTTCAATCCGCCCCATGATCGG
* *
37868334 GGTAAAAGATTGGATGATGTCTTCAATCTGCCCTCTGATTAGGGTAAAAGATTGGAT
66 GGTAAAAGATTGGATGATATCTTCAATCTGCCCTCTGATTAGAGTAAAAGATTGGAT
*
37868391 GCTTCAATCTACCCCATGATCGGGGTAAGAGATTG
1 GCTTCAATCTGCCCCATGATCGGGGTAAGAGATTG
37868426 GATGGTAGCT
Statistics
Matches: 142, Mismatches: 15, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
122 142 1.00
ACGTcount: A:0.26, C:0.18, G:0.25, T:0.31
Consensus pattern (122 bp):
GCTTCAATCTGCCCCATGATCGGGGTAAGAGATTGAATGAGGTCTTCAATCCGCCCCATGATCGG
GGTAAAAGATTGGATGATATCTTCAATCTGCCCTCTGATTAGAGTAAAAGATTGGAT
Found at i:37868695 original size:49 final size:49
Alignment explanation
Indices: 37868631--37868973 Score: 267
Period size: 49 Copynumber: 7.0 Consensus size: 49
37868621 CAATCTGCTT
* * * *
37868631 CATCTTTATGGTATAAGATTCACCATCGCGACCTCAATCTTTCCCTTCA
1 CATCTTTAGGGTATAAGATTCACCGTTGCGGCCTCAATCTTTCCCTTCA
* * ** * ** * *
37868680 CATCTCTAGGGTATAAGGTTTGCTGTTGTAGCCTCGACCTTTCCCTTCA
1 CATCTTTAGGGTATAAGATTCACCGTTGCGGCCTCAATCTTTCCCTTCA
* ** * * * *
37868729 CGTCTTTAGGGT-TCAAGATTCGTCGTTGCGGTCTCAACCTTTTCTTTCA
1 CATCTTTAGGGTAT-AAGATTCACCGTTGCGGCCTCAATCTTTCCCTTCA
* * * *
37868778 CATCTTTAGGCTACAAGATTTACCGTTGCGGCCTCAATCTTTCCCTTCG
1 CATCTTTAGGGTATAAGATTCACCGTTGCGGCCTCAATCTTTCCCTTCA
* * * * * *
37868827 CAT-TTCTAAGGTATAAGGTTCACTGTTGTGGCTTCAATCTTTCCCATCA
1 CATCTT-TAGGGTATAAGATTCACCGTTGCGGCCTCAATCTTTCCCTTCA
* * * * * * * *
37868876 CATATCTAAGGTACAAGGTTCACCGTTGCGGCTTCAACCTTTCCTTTCA
1 CATCTTTAGGGTATAAGATTCACCGTTGCGGCCTCAATCTTTCCCTTCA
* * ** *
37868925 TATCTTTAGGGTATCAGATTTGCCGTTGCGGCTTCAATCTTTCCCTTCA
1 CATCTTTAGGGTATAAGATTCACCGTTGCGGCCTCAATCTTTCCCTTCA
37868974 AACTTGTAGA
Statistics
Matches: 226, Mismatches: 64, Indels: 8
0.76 0.21 0.03
Matches are distributed among these distances:
48 3 0.01
49 222 0.98
50 1 0.00
ACGTcount: A:0.19, C:0.27, G:0.17, T:0.37
Consensus pattern (49 bp):
CATCTTTAGGGTATAAGATTCACCGTTGCGGCCTCAATCTTTCCCTTCA
Found at i:37868903 original size:147 final size:146
Alignment explanation
Indices: 37868631--37868973 Score: 384
Period size: 147 Copynumber: 2.3 Consensus size: 146
37868621 CAATCTGCTT
* * * * * *
37868631 CATCTTTATGGTATAAGATTCACCATCGCGACCTCAATCTTTCCCTTCACATCTCTAGGGTATAA
1 CATCTTTA-GGTACAAGATTTACCGTTGCGGCCTCAATCTTTCCCTTCACATCTCTAAGGTATAA
** * * * * * * * **
37868696 GGTTTGCTGTTGTAGCCTCGACCTTTCCCTTCACGTCTTTAGGGTTCAAGATTCGTCGTTGCGG-
65 GGTTCACTGTTGTAGCCTCAACCTTTCCCATCACATATCTAAGGTACAAGATTCACCGTTGCGGC
*
37868760 TCTCAACCTTTTCTTTCA
130 T-TCAACCTTTCCTTTCA
* *
37868778 CATCTTTAGGCTACAAGATTTACCGTTGCGGCCTCAATCTTTCCCTTCGCATTTCTAAGGTATAA
1 CATCTTTAGG-TACAAGATTTACCGTTGCGGCCTCAATCTTTCCCTTCACATCTCTAAGGTATAA
* * * *
37868843 GGTTCACTGTTGTGGCTTCAATCTTTCCCATCACATATCTAAGGTACAAGGTTCACCGTTGCGGC
65 GGTTCACTGTTGTAGCCTCAACCTTTCCCATCACATATCTAAGGTACAAGATTCACCGTTGCGGC
37868908 TTCAACCTTTCCTTTCA
130 TTCAACCTTTCCTTTCA
* * *
37868925 TATCTTTAGGGTATC-AGATTTGCCGTTGCGGCTTCAATCTTTCCCTTCA
1 CATCTTTA-GGTA-CAAGATTTACCGTTGCGGCCTCAATCTTTCCCTTCA
37868974 AACTTGTAGA
Statistics
Matches: 164, Mismatches: 28, Indels: 8
0.82 0.14 0.04
Matches are distributed among these distances:
146 2 0.01
147 158 0.96
148 4 0.02
ACGTcount: A:0.19, C:0.27, G:0.17, T:0.37
Consensus pattern (146 bp):
CATCTTTAGGTACAAGATTTACCGTTGCGGCCTCAATCTTTCCCTTCACATCTCTAAGGTATAAG
GTTCACTGTTGTAGCCTCAACCTTTCCCATCACATATCTAAGGTACAAGATTCACCGTTGCGGCT
TCAACCTTTCCTTTCA
Found at i:37869567 original size:112 final size:112
Alignment explanation
Indices: 37869361--37869582 Score: 356
Period size: 112 Copynumber: 2.0 Consensus size: 112
37869351 CCTTATATCG
*
37869361 TTAGACCACTAACTGTCATTTCAATGCAAAAATGCTTGAACAGGGTTGTAAGGTGGATAAAATTA
1 TTAGACCACTAACTGTCATTTCAATGCAAAAATGCTTGAACAAGGTTGTAAGGTGGATAAAATTA
* *
37869426 TATTTTATTGGAGGTAAAGCTCGCGTGAATGAAAAGATTAAAAATCA
66 TATTTTATTGGAGGCAAAGCTCGCATGAATGAAAAGATTAAAAATCA
* * **
37869473 TTAGTCCACTAACTGTTATTTCAATGCAAACGTGCTTGAACAAGGTTGTAAGGTGGATAAAATTG
1 TTAGACCACTAACTGTCATTTCAATGCAAAAATGCTTGAACAAGGTTGTAAGGTGGATAAAATT-
*
37869538 A-ATTTTATTGGAGGCAAAGCTCGTATGAATGAAAAGATTAAAAAT
65 ATATTTTATTGGAGGCAAAGCTCGCATGAATGAAAAGATTAAAAAT
37869583 GACAAACATT
Statistics
Matches: 101, Mismatches: 8, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
112 100 0.99
113 1 0.01
ACGTcount: A:0.38, C:0.11, G:0.21, T:0.30
Consensus pattern (112 bp):
TTAGACCACTAACTGTCATTTCAATGCAAAAATGCTTGAACAAGGTTGTAAGGTGGATAAAATTA
TATTTTATTGGAGGCAAAGCTCGCATGAATGAAAAGATTAAAAATCA
Found at i:37869902 original size:7 final size:7
Alignment explanation
Indices: 37869890--37869932 Score: 50
Period size: 7 Copynumber: 5.7 Consensus size: 7
37869880 CCTTAACCTC
37869890 TCTTTTT
1 TCTTTTT
37869897 TCTTTTTCT
1 TC-TTTT-T
*
37869906 TCTCTTT
1 TCTTTTT
37869913 TCTTTTT
1 TCTTTTT
37869920 TCTTCTTT
1 TCTT-TTT
37869928 TCTTT
1 TCTTT
37869933 CTGTCCCCTT
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
7 14 0.45
8 14 0.45
9 3 0.10
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (7 bp):
TCTTTTT
Found at i:37869925 original size:20 final size:18
Alignment explanation
Indices: 37869888--37869934 Score: 62
Period size: 17 Copynumber: 2.7 Consensus size: 18
37869878 CACCTTAACC
37869888 TCTCTTTTTTCTTTTTCT
1 TCTCTTTTTTCTTTTTCT
*
37869906 TCTCTTTTCT-TTTTTCT
1 TCTCTTTTTTCTTTTTCT
37869923 TCT-TTTCTTTCT
1 TCTCTTT-TTTCT
37869935 GTCCCCTTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
16 3 0.12
17 12 0.48
18 10 0.40
ACGTcount: A:0.00, C:0.23, G:0.00, T:0.77
Consensus pattern (18 bp):
TCTCTTTTTTCTTTTTCT
Found at i:37875105 original size:28 final size:29
Alignment explanation
Indices: 37875059--37875152 Score: 104
Period size: 30 Copynumber: 3.2 Consensus size: 29
37875049 TGGAAAGTTT
* *
37875059 GAAAGTTTAGGGTCAAAATGCAA-TTTTA
1 GAAAGTTTAGAGTCAAAATGAAATTTTTA
37875087 -AAAGTTTAAGAGTCAAAATGAAATTTTTA
1 GAAAGTTT-AGAGTCAAAATGAAATTTTTA
* *
37875116 GAAAGTTCAGGAG-CAAGAATGATATTTTTA
1 GAAAGTTTA-GAGTCAA-AATGAAATTTTTA
37875146 GAAAGTT
1 GAAAGTT
37875153 CGAGGGTTAA
Statistics
Matches: 57, Mismatches: 4, Indels: 8
0.83 0.06 0.12
Matches are distributed among these distances:
27 7 0.12
28 13 0.23
29 9 0.16
30 28 0.49
ACGTcount: A:0.43, C:0.05, G:0.20, T:0.32
Consensus pattern (29 bp):
GAAAGTTTAGAGTCAAAATGAAATTTTTA
Found at i:37881270 original size:50 final size:49
Alignment explanation
Indices: 37881132--37881263 Score: 137
Period size: 50 Copynumber: 2.7 Consensus size: 49
37881122 TCAGATCTTG
* *
37881132 TTTATTTAAATTG--TT-TTCAGATATGATATTTTAAATAAATATAAATA
1 TTTATTT-AATTGTTTTGTTCAAATATGATATTTTAAATAAACATAAATA
* * * *
37881179 TTTATTTAATTTGTTTTGCTT-AAATCTGGTGTTTTACATAAACATAAATA
1 TTTATTTAA-TTGTTTTG-TTCAAATATGATATTTTAAATAAACATAAATA
*
37881229 TTTATTTATATTGTTTTGTTCAAATATCATATTTT
1 TTTATTTA-ATTGTTTTGTTCAAATATGATATTTT
37881264 TTATAAATAT
Statistics
Matches: 68, Mismatches: 10, Indels: 11
0.76 0.11 0.12
Matches are distributed among these distances:
46 2 0.03
47 10 0.15
49 4 0.06
50 49 0.72
51 3 0.04
ACGTcount: A:0.34, C:0.05, G:0.08, T:0.53
Consensus pattern (49 bp):
TTTATTTAATTGTTTTGTTCAAATATGATATTTTAAATAAACATAAATA
Found at i:37882652 original size:33 final size:33
Alignment explanation
Indices: 37882615--37882717 Score: 125
Period size: 33 Copynumber: 3.0 Consensus size: 33
37882605 GAAAGTTGGG
*
37882615 AATGTATTAGAGATTCAATTATAATATGATTTA
1 AATGTATTGGAGATTCAATTATAATATGATTTA
*
37882648 AATGTATTGGAGATTCAATTATAATATTATATGTTTTA
1 AATGTATTGGAGATTCAA-T-T-ATA--ATATGATTTA
* *
37882686 AATGTAATGGAGATTTAATTATAATATGATTT
1 AATGTATTGGAGATTCAATTATAATATGATTT
37882718 GTGATTACTA
Statistics
Matches: 60, Mismatches: 5, Indels: 10
0.80 0.07 0.13
Matches are distributed among these distances:
33 25 0.42
34 1 0.02
35 4 0.07
36 4 0.07
37 1 0.02
38 25 0.42
ACGTcount: A:0.40, C:0.02, G:0.14, T:0.45
Consensus pattern (33 bp):
AATGTATTGGAGATTCAATTATAATATGATTTA
Found at i:37882686 original size:38 final size:37
Alignment explanation
Indices: 37882615--37882712 Score: 123
Period size: 38 Copynumber: 2.7 Consensus size: 37
37882605 GAAAGTTGGG
*
37882615 AATGTATTAGAGATTCAA-T-T-ATA-ATATGATTTA
1 AATGTATTGGAGATTCAATTATAATATATATGATTTA
*
37882648 AATGTATTGGAGATTCAATTATAATATTATATGTTTTA
1 AATGTATTGGAGATTCAATTATAATA-TATATGATTTA
* *
37882686 AATGTAATGGAGATTTAATTATAATAT
1 AATGTATTGGAGATTCAATTATAATAT
37882713 GATTTGTGAT
Statistics
Matches: 56, Mismatches: 4, Indels: 6
0.85 0.06 0.09
Matches are distributed among these distances:
33 17 0.30
34 1 0.02
35 1 0.02
36 3 0.05
37 1 0.02
38 33 0.59
ACGTcount: A:0.41, C:0.02, G:0.13, T:0.44
Consensus pattern (37 bp):
AATGTATTGGAGATTCAATTATAATATATATGATTTA
Found at i:37896040 original size:39 final size:39
Alignment explanation
Indices: 37895997--37896182 Score: 205
Period size: 39 Copynumber: 4.8 Consensus size: 39
37895987 ATTTCTTTGT
* * *
37895997 AGTGTTTTCAGTGTCACTGCCAATTCAGTAGCATGTTGC
1 AGTGTTTTCAGTGTCACTGCCAGTTCAGTAGCGTATTGC
* *
37896036 AGTGTTTAT-AGTGTCACTGCTAGTTCAATAGCGTATTGC
1 AGTGTTT-TCAGTGTCACTGCCAGTTCAGTAGCGTATTGC
* * * *
37896075 AATATTTAT-AGTGTCACTGCCAGTTCAGTAACGTATTGT
1 AGTGTTT-TCAGTGTCACTGCCAGTTCAGTAGCGTATTGC
* * *
37896114 AGTGTTTACAGTGTCACTGCCAATTCAATAGCGTATTGC
1 AGTGTTTTCAGTGTCACTGCCAGTTCAGTAGCGTATTGC
* * *
37896153 AGTGTTTACAATGTCACTGCTAGTTCAGTA
1 AGTGTTTTCAGTGTCACTGCCAGTTCAGTA
37896183 AATTGATAAC
Statistics
Matches: 123, Mismatches: 22, Indels: 4
0.83 0.15 0.03
Matches are distributed among these distances:
39 122 0.99
40 1 0.01
ACGTcount: A:0.25, C:0.18, G:0.21, T:0.37
Consensus pattern (39 bp):
AGTGTTTTCAGTGTCACTGCCAGTTCAGTAGCGTATTGC
Found at i:37896064 original size:78 final size:78
Alignment explanation
Indices: 37896006--37896183 Score: 230
Period size: 78 Copynumber: 2.3 Consensus size: 78
37895996 TAGTGTTTTC
* * * *
37896006 AGTGTCACTGCCAATTCAGTAGCATGTTGCAGTGTTTATAGTGTCACTGCTAGTTCAATAGCGTA
1 AGTGTCACTGCCAATTCAGTAACATATTGCAGTGTTTACAGTGTCACTGCTAATTCAATAGCGTA
37896071 TTGCAATATTTAT
66 TTGCAATATTTAT
* * * *
37896084 AGTGTCACTGCCAGTTCAGTAACGTATTGTAGTGTTTACAGTGTCACTGCCAATTCAATAGCGTA
1 AGTGTCACTGCCAATTCAGTAACATATTGCAGTGTTTACAGTGTCACTGCTAATTCAATAGCGTA
* * *
37896149 TTGCAGTGTTTAC
66 TTGCAATATTTAT
* * *
37896162 AATGTCACTGCTAGTTCAGTAA
1 AGTGTCACTGCCAATTCAGTAA
37896184 ATTGATAACT
Statistics
Matches: 87, Mismatches: 13, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
78 87 1.00
ACGTcount: A:0.26, C:0.18, G:0.21, T:0.35
Consensus pattern (78 bp):
AGTGTCACTGCCAATTCAGTAACATATTGCAGTGTTTACAGTGTCACTGCTAATTCAATAGCGTA
TTGCAATATTTAT
Found at i:37896393 original size:72 final size:69
Alignment explanation
Indices: 37896260--37896449 Score: 206
Period size: 72 Copynumber: 2.6 Consensus size: 69
37896250 CCATGTGTGT
* *
37896260 CACACGATCTAGCACACGCCCGTGTGTCCAAGCCGTGTAACTCACTGTTTTTGTTCACACAAA-A
1 CACACG-TCTGGCACACG-CCGTGTGTCC-AGCCGTGTAACTCACTATTTTTGTTCACACAAACA
37896324 TGG-TATC
63 -GGATATC
* *
37896331 GGCACACGTCTGGCACACGCCAATGTGTCCAGCACGTGTAACTCACTATTTTTGATT-TCACAAA
1 --CACACGTCTGGCACACGCC-GTGTGTCCAGC-CGTGTAACTCACTATTTTTG-TTCACACAAA
37896395 CAGGATATC
61 CAGGATATC
*
37896404 CACACAGCCTGGCACACGCTCGTGTGTCCAGGCCGTGTAACTCACT
1 CACAC-GTCTGGCACACGC-CGTGTGTCCA-GCCGTGTAACTCACT
37896450 GTTTCTGTAC
Statistics
Matches: 103, Mismatches: 6, Indels: 17
0.82 0.05 0.13
Matches are distributed among these distances:
71 10 0.10
72 77 0.75
73 16 0.16
ACGTcount: A:0.25, C:0.31, G:0.20, T:0.25
Consensus pattern (69 bp):
CACACGTCTGGCACACGCCGTGTGTCCAGCCGTGTAACTCACTATTTTTGTTCACACAAACAGGA
TATC
Found at i:37899655 original size:18 final size:18
Alignment explanation
Indices: 37899625--37899668 Score: 56
Period size: 18 Copynumber: 2.4 Consensus size: 18
37899615 AAAAGTGATC
37899625 AAAAAAGTA-GAGAAAAA-
1 AAAAAA-TATGAGAAAAAT
37899642 AGAAAAATATGAGAAAAAT
1 A-AAAAATATGAGAAAAAT
37899661 AAAAAATA
1 AAAAAATA
37899669 AAAAATATTC
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
17 3 0.12
18 20 0.83
19 1 0.04
ACGTcount: A:0.75, C:0.00, G:0.14, T:0.11
Consensus pattern (18 bp):
AAAAAATATGAGAAAAAT
Found at i:37910148 original size:12 final size:12
Alignment explanation
Indices: 37910131--37910171 Score: 50
Period size: 12 Copynumber: 3.4 Consensus size: 12
37910121 CAGGTTCTTT
37910131 TTCTTCTTTCTC
1 TTCTTCTTTCTC
37910143 TTCTTCCTTTC-C
1 TTCTT-CTTTCTC
37910155 TTCTTC-TTCTTC
1 TTCTTCTTTC-TC
37910167 TTCTT
1 TTCTT
37910172 GATCCTTCTC
Statistics
Matches: 26, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
10 3 0.12
11 1 0.04
12 17 0.65
13 5 0.19
ACGTcount: A:0.00, C:0.34, G:0.00, T:0.66
Consensus pattern (12 bp):
TTCTTCTTTCTC
Found at i:37919729 original size:19 final size:19
Alignment explanation
Indices: 37919686--37919722 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
37919676 AAAATCAAAT
* *
37919686 GATGAAGCTTAACATATGA
1 GATGAAGCTTAACAAAAGA
37919705 GATGAAGCTTAACAAAAG
1 GATGAAGCTTAACAAAAG
37919723 GGGTGAATAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.46, C:0.11, G:0.22, T:0.22
Consensus pattern (19 bp):
GATGAAGCTTAACAAAAGA
Found at i:37923944 original size:18 final size:18
Alignment explanation
Indices: 37923921--37923957 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
37923911 TTTGTGATCA
37923921 AAATTGAAAGTGAAAGTG
1 AAATTGAAAGTGAAAGTG
* *
37923939 AAATTGGAATTGAAAGTG
1 AAATTGAAAGTGAAAGTG
37923957 A
1 A
37923958 TATGAATTGT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.49, C:0.00, G:0.27, T:0.24
Consensus pattern (18 bp):
AAATTGAAAGTGAAAGTG
Found at i:37929168 original size:6 final size:6
Alignment explanation
Indices: 37929149--37929210 Score: 56
Period size: 6 Copynumber: 10.5 Consensus size: 6
37929139 TTTGTGATCA
* * * * *
37929149 AAATTG AAAGTG AAATTG AAAGTG AAATTG GAATTG AAAGTG ATA-TG
1 AAATTG AAATTG AAATTG AAATTG AAATTG AAATTG AAATTG AAATTG
37929196 -AATTG TAAATTG AAA
1 AAATTG -AAATTG AAA
37929211 ATTCCTAGTA
Statistics
Matches: 44, Mismatches: 9, Indels: 6
0.75 0.15 0.10
Matches are distributed among these distances:
4 1 0.02
5 4 0.09
6 34 0.77
7 5 0.11
ACGTcount: A:0.48, C:0.00, G:0.23, T:0.29
Consensus pattern (6 bp):
AAATTG
Found at i:37930895 original size:20 final size:20
Alignment explanation
Indices: 37930880--37930945 Score: 55
Period size: 20 Copynumber: 3.3 Consensus size: 20
37930870 TAAAATAAAT
*
37930880 ATTTAATTAGATAAATATAA
1 ATTTAATTAGATAAATAGAA
* * *
37930900 ATTTTAA-AAAATATATA-AA
1 A-TTTAATTAGATAAATAGAA
*
37930919 TGTTTAATTAGATAAATAGAA
1 -ATTTAATTAGATAAATAGAA
37930940 ATTTAA
1 ATTTAA
37930946 AAAGTTATAT
Statistics
Matches: 34, Mismatches: 8, Indels: 8
0.68 0.16 0.16
Matches are distributed among these distances:
19 7 0.21
20 20 0.59
21 7 0.21
ACGTcount: A:0.55, C:0.00, G:0.06, T:0.39
Consensus pattern (20 bp):
ATTTAATTAGATAAATAGAA
Found at i:37930967 original size:40 final size:40
Alignment explanation
Indices: 37930874--37930948 Score: 125
Period size: 40 Copynumber: 1.9 Consensus size: 40
37930864 TATGTTTAAA
*
37930874 ATAAATATTTAATTAGATAAATATAAATTTTAAAAAATAT
1 ATAAATATTTAATTAGATAAATAGAAATTTTAAAAAATAT
*
37930914 ATAAATGTTTAATTAGATAAATAGAAA-TTTAAAAA
1 ATAAATATTTAATTAGATAAATAGAAATTTTAAAAA
37930949 GTTATATTTC
Statistics
Matches: 33, Mismatches: 2, Indels: 1
0.92 0.06 0.03
Matches are distributed among these distances:
39 8 0.24
40 25 0.76
ACGTcount: A:0.57, C:0.00, G:0.05, T:0.37
Consensus pattern (40 bp):
ATAAATATTTAATTAGATAAATAGAAATTTTAAAAAATAT
Found at i:37931150 original size:5 final size:5
Alignment explanation
Indices: 37931140--37931171 Score: 55
Period size: 5 Copynumber: 6.4 Consensus size: 5
37931130 AATTTTTAAA
*
37931140 AATTT AATTT AACTT AATTT AATTT AATTT AA
1 AATTT AATTT AATTT AATTT AATTT AATTT AA
37931172 ATAATTATTT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
5 25 1.00
ACGTcount: A:0.44, C:0.03, G:0.00, T:0.53
Consensus pattern (5 bp):
AATTT
Found at i:37931499 original size:18 final size:19
Alignment explanation
Indices: 37931476--37931511 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
37931466 ATGATATTGA
37931476 TTATTACAAAAT-ATTTTC
1 TTATTACAAAATAATTTTC
*
37931494 TTATTATAAAATAATTTT
1 TTATTACAAAATAATTTT
37931512 TTTTTGGTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 11 0.69
19 5 0.31
ACGTcount: A:0.42, C:0.06, G:0.00, T:0.53
Consensus pattern (19 bp):
TTATTACAAAATAATTTTC
Found at i:37936168 original size:14 final size:14
Alignment explanation
Indices: 37936149--37936179 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
37936139 TGTTTCATTA
*
37936149 AAAATAATTTTTAT
1 AAAATAATTTTAAT
37936163 AAAATAATTTTAAT
1 AAAATAATTTTAAT
37936177 AAA
1 AAA
37936180 TTTATCAAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (14 bp):
AAAATAATTTTAAT
Found at i:37936211 original size:32 final size:31
Alignment explanation
Indices: 37936163--37936235 Score: 103
Period size: 32 Copynumber: 2.3 Consensus size: 31
37936153 TAATTTTTAT
37936163 AAAATAATTTTAATAAATTTA-TCAAATAATAA
1 AAAAT-ATTTTAATAAATTTATTCAAATAAT-A
*
37936195 AAAATATTTTATATAAATTTATTCAAATACTA
1 AAAATATTTTA-ATAAATTTATTCAAATAATA
37936227 AAAATATTT
1 AAAATATTT
37936236 ACTTTTAAAA
Statistics
Matches: 38, Mismatches: 1, Indels: 4
0.88 0.02 0.09
Matches are distributed among these distances:
31 6 0.16
32 24 0.63
33 8 0.21
ACGTcount: A:0.55, C:0.04, G:0.00, T:0.41
Consensus pattern (31 bp):
AAAATATTTTAATAAATTTATTCAAATAATA
Found at i:37936739 original size:22 final size:23
Alignment explanation
Indices: 37936714--37936775 Score: 74
Period size: 23 Copynumber: 2.7 Consensus size: 23
37936704 TAAAATTGAT
*
37936714 AAAATTTTAATTTAATCT-TT-TA
1 AAAATTATAATTTAAT-TATTATA
* *
37936736 AAAATTATATTTTTATTATTATA
1 AAAATTATAATTTAATTATTATA
37936759 AAAATTATAATTTAATT
1 AAAATTATAATTTAATT
37936776 TCGTTTCTCG
Statistics
Matches: 33, Mismatches: 5, Indels: 3
0.80 0.12 0.07
Matches are distributed among these distances:
21 1 0.03
22 15 0.45
23 17 0.52
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.53
Consensus pattern (23 bp):
AAAATTATAATTTAATTATTATA
Found at i:37949258 original size:16 final size:17
Alignment explanation
Indices: 37949220--37949259 Score: 55
Period size: 18 Copynumber: 2.4 Consensus size: 17
37949210 AATTCTTTTT
*
37949220 AAAAGTACTTTTGAGCCA
1 AAAAGCACTTTTGAG-CA
37949238 AAAAGCACTTTTGAG-A
1 AAAAGCACTTTTGAGCA
37949254 AAAAGC
1 AAAAGC
37949260 TAAAATTTTC
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 7 0.33
18 14 0.67
ACGTcount: A:0.45, C:0.15, G:0.17, T:0.23
Consensus pattern (17 bp):
AAAAGCACTTTTGAGCA
Found at i:37950591 original size:27 final size:27
Alignment explanation
Indices: 37950561--37950639 Score: 88
Period size: 27 Copynumber: 2.9 Consensus size: 27
37950551 TTTGTTTTGG
*
37950561 GCTCGAATGAGCTAAACTCTATTCTCA
1 GCTCAAATGAGCTAAACTCTATTCTCA
* * * **
37950588 GCTCAAATGA-CTTAAACTTTGTTTTGG
1 GCTCAAATGAGC-TAAACTCTATTCTCA
37950615 GCTCAAATGAGCTAAACTCTATTCT
1 GCTCAAATGAGCTAAACTCTATTCT
37950640 TTACAGGGCA
Statistics
Matches: 41, Mismatches: 9, Indels: 4
0.76 0.17 0.07
Matches are distributed among these distances:
26 1 0.02
27 39 0.95
28 1 0.02
ACGTcount: A:0.29, C:0.22, G:0.15, T:0.34
Consensus pattern (27 bp):
GCTCAAATGAGCTAAACTCTATTCTCA
Found at i:37955957 original size:25 final size:26
Alignment explanation
Indices: 37955919--37955969 Score: 77
Period size: 25 Copynumber: 2.0 Consensus size: 26
37955909 AGTTGTAGAG
37955919 AGAAAATTCTCTAAAGAGATTATTCT
1 AGAAAATTCTCTAAAGAGATTATTCT
* *
37955945 AGAAAA-TCTCTAAAGATATTTTTCT
1 AGAAAATTCTCTAAAGAGATTATTCT
37955970 GATTTACAAC
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 17 0.74
26 6 0.26
ACGTcount: A:0.41, C:0.12, G:0.10, T:0.37
Consensus pattern (26 bp):
AGAAAATTCTCTAAAGAGATTATTCT
Found at i:37963435 original size:36 final size:35
Alignment explanation
Indices: 37963384--37963483 Score: 101
Period size: 36 Copynumber: 2.8 Consensus size: 35
37963374 GGTAACAGGC
* * *
37963384 ATGACCTTTGGGTCAACAGGGAGTGAAATGAGCTTA
1 ATGACCTTT-GGTCAACAGGGAGTAAAATAAGCATA
** * * *
37963420 ATTCCCTTTAGGTCAATAGAGAGTAAAATAAGCATC
1 ATGACCTTT-GGTCAACAGGGAGTAAAATAAGCATA
37963456 ATGACCTTTGAGTCAACAGGGAGTAAAA
1 ATGACCTTTG-GTCAACAGGGAGTAAAA
37963484 CGAATAGCAA
Statistics
Matches: 50, Mismatches: 13, Indels: 2
0.77 0.20 0.03
Matches are distributed among these distances:
35 1 0.02
36 49 0.98
ACGTcount: A:0.36, C:0.15, G:0.24, T:0.25
Consensus pattern (35 bp):
ATGACCTTTGGTCAACAGGGAGTAAAATAAGCATA
Found at i:37965728 original size:3 final size:3
Alignment explanation
Indices: 37965720--37965776 Score: 69
Period size: 3 Copynumber: 19.0 Consensus size: 3
37965710 TCCAAAATCA
* * * * *
37965720 AAT AAT AAT AAT AAT AAT AAT AAC AAC AAC AAC AAC AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
37965768 AAT AAT AAT
1 AAT AAT AAT
37965777 TAAAAAAGAA
Statistics
Matches: 52, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 52 1.00
ACGTcount: A:0.67, C:0.09, G:0.00, T:0.25
Consensus pattern (3 bp):
AAT
Found at i:37966536 original size:87 final size:88
Alignment explanation
Indices: 37966402--37966566 Score: 244
Period size: 87 Copynumber: 1.9 Consensus size: 88
37966392 ATCATGCTCT
* *
37966402 CAATCAATCCACATACTTTTAATAATAGGGAAACAGTGTTCCTCTCAATCAATCACATACTTTCA
1 CAATCAATCCACATACTTTCAATAATAGGGAAACAATGTTCCTCTCAATCAATCACATACTTTCA
37966467 ATAATAGGGAAACAGTGTTCCTCA
66 ATAATA-GGAAACAGTGTTCCTCA
* * ** *
37966491 CAATCAAT-CACATACTTTCAATATTA-GGAAACAATGTTGCTCTCAATCGGTCATATACTTTCA
1 CAATCAATCCACATACTTTCAATAATAGGGAAACAATGTTCCTCTCAATCAATCACATACTTTCA
37966554 ATAATAGGAAACA
66 ATAATAGGAAACA
37966567 ATATTCCAAC
Statistics
Matches: 69, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
86 7 0.10
87 38 0.55
88 16 0.23
89 8 0.12
ACGTcount: A:0.38, C:0.21, G:0.11, T:0.30
Consensus pattern (88 bp):
CAATCAATCCACATACTTTCAATAATAGGGAAACAATGTTCCTCTCAATCAATCACATACTTTCA
ATAATAGGAAACAGTGTTCCTCA
Found at i:37966538 original size:43 final size:44
Alignment explanation
Indices: 37966398--37966573 Score: 239
Period size: 44 Copynumber: 4.0 Consensus size: 44
37966388 ATTCATCATG
* *
37966398 CTCTCAATCAATCCACATACTTTTAATAATAGGGAAACAGTGTTC
1 CTCTCAATCAAT-CACATACTTTCAATAATAGGGAAACAATGTTC
*
37966443 CTCTCAATCAATCACATACTTTCAATAATAGGGAAACAGTGTTC
1 CTCTCAATCAATCACATACTTTCAATAATAGGGAAACAATGTTC
* * *
37966487 CTCACAATCAATCACATACTTTCAATATTA-GGAAACAATGTTG
1 CTCTCAATCAATCACATACTTTCAATAATAGGGAAACAATGTTC
** * *
37966530 CTCTCAATCGGTCATATACTTTCAATAATA-GGAAACAATATTC
1 CTCTCAATCAATCACATACTTTCAATAATAGGGAAACAATGTTC
37966573 C
1 C
37966574 AACTTTCAAA
Statistics
Matches: 119, Mismatches: 12, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
43 48 0.40
44 59 0.50
45 12 0.10
ACGTcount: A:0.37, C:0.22, G:0.10, T:0.31
Consensus pattern (44 bp):
CTCTCAATCAATCACATACTTTCAATAATAGGGAAACAATGTTC
Found at i:37973552 original size:17 final size:17
Alignment explanation
Indices: 37973530--37973583 Score: 72
Period size: 17 Copynumber: 3.1 Consensus size: 17
37973520 TGCCCTGTGC
* *
37973530 GCGAACCCCTTGCATGT
1 GCGAACCCCCTACATGT
37973547 GCGAACCCCCTACATGT
1 GCGAACCCCCTACATGT
37973564 GCGAACCCTCCTTACATGT
1 GCGAACCC-CC-TACATGT
37973583 G
1 G
37973584 AAACTCTATA
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
17 23 0.70
18 2 0.06
19 8 0.24
ACGTcount: A:0.20, C:0.37, G:0.20, T:0.22
Consensus pattern (17 bp):
GCGAACCCCCTACATGT
Found at i:37973813 original size:34 final size:34
Alignment explanation
Indices: 37973760--37973870 Score: 107
Period size: 34 Copynumber: 3.3 Consensus size: 34
37973750 GGTGATTAAG
* * *
37973760 ATGCGAACCCTAGGAATATGCGAGCTTATGTGTC
1 ATGCGAACCATAGGAATATGCGAGCCTATATGTC
* * *
37973794 ATGCGAACCATAGGTATATGGGAGCCTATATGTT
1 ATGCGAACCATAGGAATATGCGAGCCTATATGTC
** * * *
37973828 ATGCGAACCCGA-GACTCATGTGAGCCTATATGTT
1 ATGCGAACCATAGGAAT-ATGCGAGCCTATATGTC
37973862 ATGCGAACC
1 ATGCGAACC
37973871 TATATATGTG
Statistics
Matches: 65, Mismatches: 11, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
33 2 0.03
34 63 0.97
ACGTcount: A:0.28, C:0.21, G:0.25, T:0.26
Consensus pattern (34 bp):
ATGCGAACCATAGGAATATGCGAGCCTATATGTC
Found at i:37973874 original size:17 final size:17
Alignment explanation
Indices: 37973794--37973875 Score: 51
Period size: 17 Copynumber: 4.8 Consensus size: 17
37973784 CTTATGTGTC
*
37973794 ATGCGAACC-ATAGGTAT
1 ATGCGAACCTATATGT-T
* *
37973811 ATGGGAGCCTATATGTT
1 ATGCGAACCTATATGTT
* * * *
37973828 ATGCGAACCCGAGA-CTC
1 ATGCGAA-CCTATATGTT
* *
37973845 ATGTGAGCCTATATGTT
1 ATGCGAACCTATATGTT
37973862 ATGCGAACCTATAT
1 ATGCGAACCTATAT
37973876 ATGTGCTTGA
Statistics
Matches: 45, Mismatches: 17, Indels: 6
0.66 0.25 0.09
Matches are distributed among these distances:
16 4 0.09
17 32 0.71
18 9 0.20
ACGTcount: A:0.29, C:0.20, G:0.23, T:0.28
Consensus pattern (17 bp):
ATGCGAACCTATATGTT
Found at i:37974312 original size:41 final size:41
Alignment explanation
Indices: 37974264--37974346 Score: 166
Period size: 41 Copynumber: 2.0 Consensus size: 41
37974254 TAAAAAGCCA
37974264 TCAAAACTGGGCAACCAAGATGATAAGTGATAGTAAATAAT
1 TCAAAACTGGGCAACCAAGATGATAAGTGATAGTAAATAAT
37974305 TCAAAACTGGGCAACCAAGATGATAAGTGATAGTAAATAAT
1 TCAAAACTGGGCAACCAAGATGATAAGTGATAGTAAATAAT
37974346 T
1 T
37974347 TTAGTATTTT
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 42 1.00
ACGTcount: A:0.46, C:0.12, G:0.19, T:0.23
Consensus pattern (41 bp):
TCAAAACTGGGCAACCAAGATGATAAGTGATAGTAAATAAT
Found at i:37981483 original size:6 final size:7
Alignment explanation
Indices: 37981456--37981489 Score: 50
Period size: 7 Copynumber: 4.6 Consensus size: 7
37981446 ACCTAAACCC
37981456 GAAAAAGA
1 GAAAAA-A
37981464 GAAAAAAA
1 G-AAAAAA
37981472 GAAAAAA
1 GAAAAAA
37981479 GAAAAAA
1 GAAAAAA
37981486 GAAA
1 GAAA
37981490 CCCCAAACCT
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
7 17 0.68
8 3 0.12
9 5 0.20
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (7 bp):
GAAAAAA
Found at i:37981800 original size:12 final size:12
Alignment explanation
Indices: 37981783--37981807 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
37981773 ACGCACGATT
37981783 CCTTCACCATCA
1 CCTTCACCATCA
37981795 CCTTCACCATCA
1 CCTTCACCATCA
37981807 C
1 C
37981808 TCCATCTTTC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.24, C:0.52, G:0.00, T:0.24
Consensus pattern (12 bp):
CCTTCACCATCA
Found at i:37982284 original size:45 final size:45
Alignment explanation
Indices: 37982234--37982326 Score: 143
Period size: 45 Copynumber: 2.1 Consensus size: 45
37982224 TTTTACAGTG
*
37982234 CCTTCCGCCATCGATGTTAATGATGACGATTTTGACTCA-CCATCA
1 CCTTCCGCCATCGATGTTAATGACGACGATTTTGACT-AGCCATCA
**
37982279 CCTTCCGTTATCGATGTTAATGACGACGATTTTGACTAGCCATCA
1 CCTTCCGCCATCGATGTTAATGACGACGATTTTGACTAGCCATCA
37982324 CCT
1 CCT
37982327 CCACCACCAC
Statistics
Matches: 44, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
44 1 0.02
45 43 0.98
ACGTcount: A:0.24, C:0.28, G:0.16, T:0.32
Consensus pattern (45 bp):
CCTTCCGCCATCGATGTTAATGACGACGATTTTGACTAGCCATCA
Found at i:37983330 original size:297 final size:297
Alignment explanation
Indices: 37982796--37983392 Score: 973
Period size: 297 Copynumber: 2.0 Consensus size: 297
37982786 AAGCACCAGT
* *
37982796 CAAGATACGAGGAGATTCAACATCGACCTATGCTAGTACATATACGCCTCGCAGTAATAGAGTGT
1 CAAGATACAAGGAGATTCAACATCGACCTATGCCAGTACATATACGCCTCGCAGTAATAGAGTGT
* *
37982861 TCCGACGAACACAAAATTTCACTCCGAGGGATCAAGATGAGCAACCCCATTCCGCTATGGAGGAA
66 TCCAACGAACACAAAATTTCACTCCAAGGGATCAAGATGAGCAACCCCATTCCGCTATGGAGGAA
37982926 AGAATGAATCATTTTGAAGCTCGCTTGAATCAATGAAAGCCAACATCAAACGTATCCTCTCAATG
131 AGAATGAATCATTTTGAAGCTCGCTTGAATCAATGAAAGCCAACATCAAACGTATCCTCTCAATG
* * * *
37982991 TTAGAGCATGAGCACTGCCGTTATCCTCCACCTCGTTAAATTTACACAGGGAGTACACTTTGCCC
196 TTAGAGCACGAGCACCGCCGTCATCCTCCACCTCATTAAATTTACACAGGGAGTACACTTTGCCC
*
37983056 TATCTTTTTCTATTATTTAAAACTTGCACATTGAGGG
261 TATCTTTTTCTATTATTTAAAACTTGCACATTGAGAG
* *
37983093 CAAGATACAAGGAGATTCAACATCGGCCTATGCCAGTACATATACGCCTTGCAGTAATAGAGTGT
1 CAAGATACAAGGAGATTCAACATCGACCTATGCCAGTACATATACGCCTCGCAGTAATAGAGTGT
* * * *
37983158 TCCAATGAACACGAAATTTCGCTCCAAGGGATCGAGATGAGCAACCCCATTCCG-TCATGGAGG-
66 TCCAACGAACACAAAATTTCACTCCAAGGGATCAAGATGAGCAACCCCATTCCGCT-ATGGAGGA
* *
37983221 AAGAATGAATCATTTTGAAGCTCGCTTGGAATCAATGGAAGCCAACATCGAACGTATCCTCTCAA
130 AAGAATGAATCATTTTGAAGCTCGCTT-GAATCAATGAAAGCCAACATCAAACGTATCCTCTCAA
* * * *
37983286 TGTTAGAGCGCGAGCACCGCTGTCGTCCTCCACCTCATTAAATTTACACGGGGAGTACACTTTGC
194 TGTTAGAGCACGAGCACCGCCGTCATCCTCCACCTCATTAAATTTACACAGGGAGTACACTTTGC
37983351 CCTATCTTTTTCTATTATTTAAAACTTGCACATTGAGAG
259 CCTATCTTTTTCTATTATTTAAAACTTGCACATTGAGAG
37983390 CAA
1 CAA
37983393 TGTGGATTAA
Statistics
Matches: 277, Mismatches: 21, Indels: 4
0.92 0.07 0.01
Matches are distributed among these distances:
296 28 0.10
297 249 0.90
ACGTcount: A:0.31, C:0.24, G:0.19, T:0.26
Consensus pattern (297 bp):
CAAGATACAAGGAGATTCAACATCGACCTATGCCAGTACATATACGCCTCGCAGTAATAGAGTGT
TCCAACGAACACAAAATTTCACTCCAAGGGATCAAGATGAGCAACCCCATTCCGCTATGGAGGAA
AGAATGAATCATTTTGAAGCTCGCTTGAATCAATGAAAGCCAACATCAAACGTATCCTCTCAATG
TTAGAGCACGAGCACCGCCGTCATCCTCCACCTCATTAAATTTACACAGGGAGTACACTTTGCCC
TATCTTTTTCTATTATTTAAAACTTGCACATTGAGAG
Found at i:37983592 original size:188 final size:188
Alignment explanation
Indices: 37983275--37983639 Score: 633
Period size: 188 Copynumber: 1.9 Consensus size: 188
37983265 ACATCGAACG
* * *
37983275 TATCCTCTCAATGTTAGAGCGCGAGCACCGCTGTCGTCCTCCACCTCATTAAATTTACACGGGGA
1 TATCCTCTCAATGTTAGAGCGCGAGCACCACAGTCGTCCTCCACCTCATTAAATTTACACAGGGA
* * *
37983340 GTACACTTTGCCCTATCTTTTTCTATTATTTAAAACTTGCACATTGAGAGCAATGTGGATTAAGT
66 ATACACTTTACCCTATCTTTTTCTATTATTTAAAACTTGCACATTGAGAGCAATATGGATTAAGT
37983405 AGGGGGAATTCATTATGCATGTCATACTATTTCTCTATGCTTATATGCTTATTCATAT
131 AGGGGGAATTCATTATGCATGTCATACTATTTCTCTATGCTTATATGCTTATTCATAT
* *
37983463 TATCCTCTCAATGTTAGAGCGCGAGCACCACAGTCGTCCTCCACCTCGTTAAATTTACATAGGGA
1 TATCCTCTCAATGTTAGAGCGCGAGCACCACAGTCGTCCTCCACCTCATTAAATTTACACAGGGA
37983528 ATACACTTTACCCTATCTTTTTCTATTATTTAAAACTTGCACATTGAG-GACAATATGGATTAAG
66 ATACACTTTACCCTATCTTTTTCTATTATTTAAAACTTGCACATTGAGAG-CAATATGGATTAAG
*
37983592 TAGGGGGAATTCATTATGCATGTCATGCTATTTCTCTATGCTTATATG
130 TAGGGGGAATTCATTATGCATGTCATACTATTTCTCTATGCTTATATG
37983640 AATATGCTTA
Statistics
Matches: 167, Mismatches: 9, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
187 1 0.01
188 166 0.99
ACGTcount: A:0.27, C:0.21, G:0.17, T:0.36
Consensus pattern (188 bp):
TATCCTCTCAATGTTAGAGCGCGAGCACCACAGTCGTCCTCCACCTCATTAAATTTACACAGGGA
ATACACTTTACCCTATCTTTTTCTATTATTTAAAACTTGCACATTGAGAGCAATATGGATTAAGT
AGGGGGAATTCATTATGCATGTCATACTATTTCTCTATGCTTATATGCTTATTCATAT
Found at i:37983713 original size:25 final size:25
Alignment explanation
Indices: 37983685--37983732 Score: 96
Period size: 25 Copynumber: 1.9 Consensus size: 25
37983675 TTAATTCTGC
37983685 AAATTTAGATGTGAATAAATAAATA
1 AAATTTAGATGTGAATAAATAAATA
37983710 AAATTTAGATGTGAATAAATAAA
1 AAATTTAGATGTGAATAAATAAA
37983733 ATTGGGCTTG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.56, C:0.00, G:0.12, T:0.31
Consensus pattern (25 bp):
AAATTTAGATGTGAATAAATAAATA
Found at i:37983992 original size:17 final size:18
Alignment explanation
Indices: 37983970--37984010 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
37983960 TTATGTCTCA
* *
37983970 AAAAAATAAA-TAAATAG
1 AAAAAATAAAGAAAAAAG
37983987 AAAAAATAAAGAAAAAAG
1 AAAAAATAAAGAAAAAAG
37984005 AAAAAA
1 AAAAAA
37984011 GAGAAATATA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 10 0.48
18 11 0.52
ACGTcount: A:0.83, C:0.00, G:0.07, T:0.10
Consensus pattern (18 bp):
AAAAAATAAAGAAAAAAG
Found at i:37983992 original size:18 final size:19
Alignment explanation
Indices: 37983969--37984010 Score: 52
Period size: 17 Copynumber: 2.3 Consensus size: 19
37983959 ATTATGTCTC
* *
37983969 AAAAAAATAAA-TAAATAG
1 AAAAAAATAAAGAAAAAAG
37983987 -AAAAAATAAAGAAAAAAG
1 AAAAAAATAAAGAAAAAAG
37984005 AAAAAA
1 AAAAAA
37984011 GAGAAATATA
Statistics
Matches: 20, Mismatches: 2, Indels: 3
0.80 0.08 0.12
Matches are distributed among these distances:
17 10 0.50
18 5 0.25
19 5 0.25
ACGTcount: A:0.83, C:0.00, G:0.07, T:0.10
Consensus pattern (19 bp):
AAAAAAATAAAGAAAAAAG
Found at i:37985754 original size:46 final size:46
Alignment explanation
Indices: 37985667--37985765 Score: 128
Period size: 46 Copynumber: 2.2 Consensus size: 46
37985657 CGGAACAAAT
* * *
37985667 AGAGAGTACACAAAGTACTAATTAGAGAGCACACAAAGTGCTAATC
1 AGAGAGCACACAAAGTACTAATCAGAGAGCACACAAAGTGCTAAAC
* * *
37985713 AGAGAGCACACAAAGTGCTAATCAGAGAGCACGA-GACGTGCTAAAC
1 AGAGAGCACACAAAGTACTAATCAGAGAGCAC-ACAAAGTGCTAAAC
37985759 AGAGAGC
1 AGAGAGC
37985766 GCGCCAGTGT
Statistics
Matches: 46, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
46 45 0.98
47 1 0.02
ACGTcount: A:0.43, C:0.19, G:0.24, T:0.13
Consensus pattern (46 bp):
AGAGAGCACACAAAGTACTAATCAGAGAGCACACAAAGTGCTAAAC
Found at i:37985765 original size:23 final size:23
Alignment explanation
Indices: 37985667--37985744 Score: 129
Period size: 23 Copynumber: 3.4 Consensus size: 23
37985657 CGGAACAAAT
* * *
37985667 AGAGAGTACACAAAGTACTAATT
1 AGAGAGCACACAAAGTGCTAATC
37985690 AGAGAGCACACAAAGTGCTAATC
1 AGAGAGCACACAAAGTGCTAATC
37985713 AGAGAGCACACAAAGTGCTAATC
1 AGAGAGCACACAAAGTGCTAATC
37985736 AGAGAGCAC
1 AGAGAGCAC
37985745 GAGACGTGCT
Statistics
Matches: 52, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 52 1.00
ACGTcount: A:0.45, C:0.19, G:0.22, T:0.14
Consensus pattern (23 bp):
AGAGAGCACACAAAGTGCTAATC
Found at i:37992878 original size:23 final size:23
Alignment explanation
Indices: 37992852--37992952 Score: 116
Period size: 23 Copynumber: 4.4 Consensus size: 23
37992842 AGTGCTTGGC
37992852 AACAGAGAGCACACACAGTGCTA
1 AACAGAGAGCACACACAGTGCTA
* * *
37992875 AACAGAGAGTACACAAAGTACTA
1 AACAGAGAGCACACACAGTGCTA
*
37992898 ATCAGAGAGCACACA-AGTGCTA
1 AACAGAGAGCACACACAGTGCTA
* *
37992920 ATCAGAGAGCACGAGAC-GTGCTA
1 AACAGAGAGCAC-ACACAGTGCTA
*
37992943 AATAGAGAGC
1 AACAGAGAGC
37992953 GTGATAGTGT
Statistics
Matches: 67, Mismatches: 9, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
22 18 0.27
23 49 0.73
ACGTcount: A:0.44, C:0.21, G:0.24, T:0.12
Consensus pattern (23 bp):
AACAGAGAGCACACACAGTGCTA
Found at i:37992942 original size:68 final size:67
Alignment explanation
Indices: 37992805--37992951 Score: 165
Period size: 68 Copynumber: 2.1 Consensus size: 67
37992795 TATACGGAAC
* *
37992805 AAACAGAGACTACCAAAGTACTACCAGAGAGCAAATAAGTGCTTGGCAACAGAGAGCACACACAG
1 AAACAGAGAGTACCAAAGTACTACCAGAGAGCAAACAAGTGCTT-G-AACAGAGAGCACACACAG
37992870 TGCT
64 TGCT
* * *
37992874 AAACAGAGAGTACACAAAGTACTAATCAGAGAGCACACAAGTGC-T-AATCAGAGAGCACGAGAC
1 AAACAGAGAGTAC-CAAAGTACT-ACCAGAGAGCAAACAAGTGCTTGAA-CAGAGAGCAC-ACAC
37992937 -GTGCT
62 AGTGCT
*
37992942 AAATAGAGAG
1 AAACAGAGAG
37992952 CGTGATAGTG
Statistics
Matches: 68, Mismatches: 6, Indels: 9
0.82 0.07 0.11
Matches are distributed among these distances:
67 2 0.03
68 24 0.35
69 15 0.22
70 10 0.15
71 17 0.25
ACGTcount: A:0.44, C:0.20, G:0.23, T:0.13
Consensus pattern (67 bp):
AAACAGAGAGTACCAAAGTACTACCAGAGAGCAAACAAGTGCTTGAACAGAGAGCACACACAGTG
CT
Found at i:38000026 original size:25 final size:24
Alignment explanation
Indices: 37999984--38000055 Score: 99
Period size: 25 Copynumber: 2.8 Consensus size: 24
37999974 ATACGAAACA
*
37999984 AACAGAGAGTACCAAAGTGCTGGGC
1 AACAGAGAGCA-CAAAGTGCTGGGC
38000009 AACAGAGAGCACATAAGTGCTGGGC
1 AACAGAGAGCACA-AAGTGCTGGGC
38000034 AACAGAGAGCACACACAGTGCT
1 AACAGAGAGCACA-A-AGTGCT
38000056 AAACAGAGAG
Statistics
Matches: 43, Mismatches: 2, Indels: 3
0.90 0.04 0.06
Matches are distributed among these distances:
24 2 0.05
25 35 0.81
26 6 0.14
ACGTcount: A:0.38, C:0.22, G:0.29, T:0.11
Consensus pattern (24 bp):
AACAGAGAGCACAAAGTGCTGGGC
Found at i:38000060 original size:23 final size:23
Alignment explanation
Indices: 38000034--38000112 Score: 122
Period size: 23 Copynumber: 3.4 Consensus size: 23
38000024 AGTGCTGGGC
*
38000034 AACAGAGAGCACACACAGTGCTA
1 AACAGAGAGCACACAAAGTGCTA
* *
38000057 AACAGAGAGTACACAAAGTACTA
1 AACAGAGAGCACACAAAGTGCTA
*
38000080 ATCAGAGAGCACACAAAGTGCTA
1 AACAGAGAGCACACAAAGTGCTA
38000103 AACAGAGAGC
1 AACAGAGAGC
38000113 GCGCTAGTGT
Statistics
Matches: 49, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 49 1.00
ACGTcount: A:0.47, C:0.22, G:0.22, T:0.10
Consensus pattern (23 bp):
AACAGAGAGCACACAAAGTGCTA
Found at i:38000593 original size:11 final size:11
Alignment explanation
Indices: 38000566--38000596 Score: 55
Period size: 10 Copynumber: 2.9 Consensus size: 11
38000556 TCAGTCTCTA
38000566 ATAATTTTTCT
1 ATAATTTTTCT
38000577 AT-ATTTTTCT
1 ATAATTTTTCT
38000587 ATAATTTTTC
1 ATAATTTTTC
38000597 AAAATCAGAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
10 10 0.53
11 9 0.47
ACGTcount: A:0.26, C:0.10, G:0.00, T:0.65
Consensus pattern (11 bp):
ATAATTTTTCT
Found at i:38006409 original size:19 final size:19
Alignment explanation
Indices: 38006367--38006413 Score: 60
Period size: 19 Copynumber: 2.5 Consensus size: 19
38006357 ATCTTCATTC
*
38006367 TAAAATTATAAATAACATA
1 TAAAATTATAAAAAACATA
*
38006386 AAAAATTATAAAAAATCAT-
1 TAAAATTATAAAAAA-CATA
38006405 TAAAATTAT
1 TAAAATTAT
38006414 TAGAAATTAA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
19 21 0.88
20 3 0.12
ACGTcount: A:0.64, C:0.04, G:0.00, T:0.32
Consensus pattern (19 bp):
TAAAATTATAAAAAACATA
Found at i:38007291 original size:29 final size:29
Alignment explanation
Indices: 38007258--38007316 Score: 75
Period size: 29 Copynumber: 2.0 Consensus size: 29
38007248 AAAATTCTTT
* *
38007258 AAAAATGAAAATAA-TATAAAAATTTAAAA
1 AAAAATGAAAAAAATTA-AAAAAATTAAAA
*
38007287 AAAAATTAAAAAAATTAAAAAAATTAAAA
1 AAAAATGAAAAAAATTAAAAAAATTAAAA
38007316 A
1 A
38007317 TTTTAAAAAT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
29 24 0.92
30 2 0.08
ACGTcount: A:0.76, C:0.00, G:0.02, T:0.22
Consensus pattern (29 bp):
AAAAATGAAAAAAATTAAAAAAATTAAAA
Found at i:38007297 original size:9 final size:9
Alignment explanation
Indices: 38007285--38007316 Score: 64
Period size: 9 Copynumber: 3.6 Consensus size: 9
38007275 AAAAATTTAA
38007285 AAAAAAATT
1 AAAAAAATT
38007294 AAAAAAATT
1 AAAAAAATT
38007303 AAAAAAATT
1 AAAAAAATT
38007312 AAAAA
1 AAAAA
38007317 TTTTAAAAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 23 1.00
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (9 bp):
AAAAAAATT
Found at i:38007300 original size:38 final size:40
Alignment explanation
Indices: 38007258--38007339 Score: 107
Period size: 38 Copynumber: 2.1 Consensus size: 40
38007248 AAAATTCTTT
*
38007258 AAAAATGAAAATAATATAAAAA-TTTAAAAA-AAAAT-TAA
1 AAAAATGAAAAAAAT-TAAAAATTTTAAAAATAAAATATAA
*
38007296 AAAAATTAAAAAAATTAAAAATTTTAAAAATTAAAATATAA
1 AAAAATGAAAAAAATTAAAAATTTTAAAAA-TAAAATATAA
38007337 AAA
1 AAA
38007340 TTTACTAAAA
Statistics
Matches: 38, Mismatches: 2, Indels: 5
0.84 0.04 0.11
Matches are distributed among these distances:
37 6 0.16
38 21 0.55
40 5 0.13
41 6 0.16
ACGTcount: A:0.73, C:0.00, G:0.01, T:0.26
Consensus pattern (40 bp):
AAAAATGAAAAAAATTAAAAATTTTAAAAATAAAATATAA
Found at i:38007358 original size:19 final size:20
Alignment explanation
Indices: 38007334--38007380 Score: 53
Period size: 19 Copynumber: 2.5 Consensus size: 20
38007324 AATTAAAATA
38007334 TAAAAATTTACTAAA-ATTT
1 TAAAAATTTACTAAATATTT
* *
38007353 TAAAAA-ATATTAAATATTT
1 TAAAAATTTACTAAATATTT
*
38007372 TAATAATTT
1 TAAAAATTT
38007381 TTAAATCACA
Statistics
Matches: 22, Mismatches: 4, Indels: 3
0.76 0.14 0.10
Matches are distributed among these distances:
18 6 0.27
19 15 0.68
20 1 0.05
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (20 bp):
TAAAAATTTACTAAATATTT
Found at i:38008028 original size:19 final size:19
Alignment explanation
Indices: 38008001--38008047 Score: 51
Period size: 21 Copynumber: 2.4 Consensus size: 19
38007991 GATAAAAACT
*
38008001 AAAAGAAAATCAA-AATATA
1 AAAAAAAAAT-AACAATATA
38008020 AAAAAAAAATAACTGAATATA
1 AAAAAAAAATAAC--AATATA
38008041 AAAAAAA
1 AAAAAAA
38008048 TTAAGGGGGA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
18 2 0.08
19 9 0.38
21 13 0.54
ACGTcount: A:0.77, C:0.04, G:0.04, T:0.15
Consensus pattern (19 bp):
AAAAAAAAATAACAATATA
Found at i:38008648 original size:17 final size:16
Alignment explanation
Indices: 38008618--38008651 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
38008608 ACCTATATAC
38008618 AATTTGTAACAAATAT
1 AATTTGTAACAAATAT
*
38008634 AATTATGTAATAAATAT
1 AATT-TGTAACAAATAT
38008651 A
1 A
38008652 TTTACTAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 4 0.25
17 12 0.75
ACGTcount: A:0.53, C:0.03, G:0.06, T:0.38
Consensus pattern (16 bp):
AATTTGTAACAAATAT
Found at i:38010193 original size:20 final size:20
Alignment explanation
Indices: 38010168--38010205 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
38010158 CATGAAAAGC
38010168 ATTCAGAAATTCAATATAGA
1 ATTCAGAAATTCAATATAGA
38010188 ATTCAGAAATTCAATATA
1 ATTCAGAAATTCAATATA
38010206 CTTGTGTCTG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.50, C:0.11, G:0.08, T:0.32
Consensus pattern (20 bp):
ATTCAGAAATTCAATATAGA
Found at i:38010915 original size:66 final size:66
Alignment explanation
Indices: 38010809--38010940 Score: 264
Period size: 66 Copynumber: 2.0 Consensus size: 66
38010799 CTTTTCGCTG
38010809 ATAATTCGTGCCGGTGGCTCGTTGCAGATCAAGGTGTGTATCGTTTTTAATTTTCCATTAGCTTT
1 ATAATTCGTGCCGGTGGCTCGTTGCAGATCAAGGTGTGTATCGTTTTTAATTTTCCATTAGCTTT
38010874 C
66 C
38010875 ATAATTCGTGCCGGTGGCTCGTTGCAGATCAAGGTGTGTATCGTTTTTAATTTTCCATTAGCTTT
1 ATAATTCGTGCCGGTGGCTCGTTGCAGATCAAGGTGTGTATCGTTTTTAATTTTCCATTAGCTTT
38010940 C
66 C
38010941 TGTTAACATT
Statistics
Matches: 66, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
66 66 1.00
ACGTcount: A:0.18, C:0.18, G:0.23, T:0.41
Consensus pattern (66 bp):
ATAATTCGTGCCGGTGGCTCGTTGCAGATCAAGGTGTGTATCGTTTTTAATTTTCCATTAGCTTT
C
Found at i:38021057 original size:47 final size:46
Alignment explanation
Indices: 38020989--38021079 Score: 155
Period size: 47 Copynumber: 2.0 Consensus size: 46
38020979 AAAGTTGGGT
*
38020989 AACTAAATGAATGTATATAATGATAAATTAATGAAAGACGACTAGA
1 AACTAAATGAATGTATATAATGATAAATTAACGAAAGACGACTAGA
*
38021035 AACTAAAATGAATGTATATAATGATAAATTAACGGAAGACGACTA
1 AACT-AAATGAATGTATATAATGATAAATTAACGAAAGACGACTA
38021080 AAATTGTAGA
Statistics
Matches: 42, Mismatches: 2, Indels: 1
0.93 0.04 0.02
Matches are distributed among these distances:
46 4 0.10
47 38 0.90
ACGTcount: A:0.52, C:0.08, G:0.15, T:0.25
Consensus pattern (46 bp):
AACTAAATGAATGTATATAATGATAAATTAACGAAAGACGACTAGA
Found at i:38030741 original size:12 final size:12
Alignment explanation
Indices: 38030720--38030749 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
38030710 TATATAATGC
38030720 ATAT-TTTCTTT
1 ATATATTTCTTT
38030731 ATATATTTCTTT
1 ATATATTTCTTT
38030743 ATATATT
1 ATATATT
38030750 ATTATACTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 4 0.22
12 14 0.78
ACGTcount: A:0.27, C:0.07, G:0.00, T:0.67
Consensus pattern (12 bp):
ATATATTTCTTT
Found at i:38030776 original size:21 final size:19
Alignment explanation
Indices: 38030743--38030789 Score: 67
Period size: 21 Copynumber: 2.4 Consensus size: 19
38030733 ATATTTCTTT
38030743 ATATATTATTATACTATTA
1 ATATATTATTATACTATTA
*
38030762 ATATATTATTCTATATTATTA
1 ATATATTA-T-TATACTATTA
38030783 ATATATT
1 ATATATT
38030790 TTAATTTATA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
19 8 0.32
20 1 0.04
21 16 0.64
ACGTcount: A:0.40, C:0.04, G:0.00, T:0.55
Consensus pattern (19 bp):
ATATATTATTATACTATTA
Found at i:38030813 original size:15 final size:14
Alignment explanation
Indices: 38030783--38030823 Score: 57
Period size: 15 Copynumber: 2.9 Consensus size: 14
38030773 TATATTATTA
*
38030783 ATATATTTTAATTT
1 ATATATTTTAAATT
38030797 ATATATATTTAAATT
1 ATATAT-TTTAAATT
38030812 ATATA-TTTAAAT
1 ATATATTTTAAAT
38030824 GACAAATAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
13 7 0.28
14 6 0.24
15 12 0.48
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (14 bp):
ATATATTTTAAATT
Found at i:38030816 original size:13 final size:13
Alignment explanation
Indices: 38030798--38030823 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
38030788 TTTTAATTTA
38030798 TATATATTTAAAT
1 TATATATTTAAAT
38030811 TATATATTTAAAT
1 TATATATTTAAAT
38030824 GACAAATAAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (13 bp):
TATATATTTAAAT
Found at i:38034207 original size:93 final size:93
Alignment explanation
Indices: 38034041--38034216 Score: 307
Period size: 93 Copynumber: 1.9 Consensus size: 93
38034031 TCAATGTACA
38034041 AAACTACCGATACCTATTATACAACTACCGAAACAACTCAAGTCAGAGAACAACTTCTCTCCTAC
1 AAACTACCGATACCTATTATACAACTACCGAAACAACTCAAGTCAGAGAACAACTTCTCTCCTAC
* * *
38034106 CTTGTACTTCTATCGATAAAAAACATTT
66 CCTATACTTCTACCGATAAAAAACATTT
*
38034134 AAACTACTGATACCTATTATACAACTACCGAAACAACTCAAGTCAGAGAACAACTTCTCTCCTAC
1 AAACTACCGATACCTATTATACAACTACCGAAACAACTCAAGTCAGAGAACAACTTCTCTCCTAC
*
38034199 CCTATACTTTTACCGATA
66 CCTATACTTCTACCGATA
38034217 CAAGCATGAG
Statistics
Matches: 78, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 78 1.00
ACGTcount: A:0.38, C:0.28, G:0.07, T:0.27
Consensus pattern (93 bp):
AAACTACCGATACCTATTATACAACTACCGAAACAACTCAAGTCAGAGAACAACTTCTCTCCTAC
CCTATACTTCTACCGATAAAAAACATTT
Found at i:38034763 original size:36 final size:36
Alignment explanation
Indices: 38034696--38034800 Score: 174
Period size: 36 Copynumber: 2.9 Consensus size: 36
38034686 TGATCGTTAT
38034696 TCGTTTTTCTCCCTGTTGACCCCAAAGGTCATGATGC
1 TCGTTTTTCTCCCTGTTGA-CCCAAAGGTCATGATGC
* *
38034733 TCGTTTTACTCCCTGTTGACCCAAAGGTCATTATGC
1 TCGTTTTTCTCCCTGTTGACCCAAAGGTCATGATGC
*
38034769 TCATTTTTCTCCCTGTTGACCCAAAGGTCATG
1 TCGTTTTTCTCCCTGTTGACCCAAAGGTCATG
38034801 CCTATTACCA
Statistics
Matches: 63, Mismatches: 5, Indels: 1
0.91 0.07 0.01
Matches are distributed among these distances:
36 45 0.71
37 18 0.29
ACGTcount: A:0.18, C:0.29, G:0.17, T:0.36
Consensus pattern (36 bp):
TCGTTTTTCTCCCTGTTGACCCAAAGGTCATGATGC
Done.