Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A12
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: 103038859
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4950000 characters in sequence are not A, C, G, or T
File 20 of 320
Found at i:5642052 original size:28 final size:28
Alignment explanation
Indices: 5641957--5642057 Score: 89
Period size: 28 Copynumber: 3.6 Consensus size: 28
5641947 CCAAAGGTGG
* * *
5641957 GTGCAAGCCAAAGTGGTGGACAGTCTAA
1 GTGCAATCCAAAGTGGCGGACAGTTTAA
* *
5641985 GTGCAAGCCAAAGTGGCGGAGA-TTCTAA
1 GTGCAATCCAAAGTGGCGGACAGTT-TAA
* *
5642013 ATGCAAGT-CAAAGTGGCAGACAGTTTAA
1 GTGCAA-TCCAAAGTGGCGGACAGTTTAA
*
5642041 GTGCACTCCAAAAGTGG
1 GTGCAATCC-AAAGTGG
5642058 GTGAAAGTCA
Statistics
Matches: 59, Mismatches: 9, Indels: 9
0.77 0.12 0.12
Matches are distributed among these distances:
27 2 0.03
28 48 0.81
29 9 0.15
ACGTcount: A:0.34, C:0.18, G:0.30, T:0.19
Consensus pattern (28 bp):
GTGCAATCCAAAGTGGCGGACAGTTTAA
Found at i:5642107 original size:28 final size:28
Alignment explanation
Indices: 5642066--5642125 Score: 84
Period size: 28 Copynumber: 2.1 Consensus size: 28
5642056 GGGTGAAAGT
* * *
5642066 CAAAGTGGCAGATAGTCTAAGTGCAAGC
1 CAAAATGGAAGATAGTCTAAATGCAAGC
*
5642094 CAAAATGGAAGATAGTCTAAATGCAAGT
1 CAAAATGGAAGATAGTCTAAATGCAAGC
5642122 CAAA
1 CAAA
5642126 GTTAGTGTAA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.43, C:0.15, G:0.23, T:0.18
Consensus pattern (28 bp):
CAAAATGGAAGATAGTCTAAATGCAAGC
Found at i:5646556 original size:55 final size:56
Alignment explanation
Indices: 5646472--5646590 Score: 222
Period size: 55 Copynumber: 2.1 Consensus size: 56
5646462 ACAAGGGATG
5646472 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAAT-GAAAAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
*
5646527 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAGAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
5646583 ATGGGCAA
1 ATGGGCAA
5646591 TAAACTAATA
Statistics
Matches: 62, Mismatches: 1, Indels: 1
0.97 0.02 0.02
Matches are distributed among these distances:
55 36 0.58
56 26 0.42
ACGTcount: A:0.45, C:0.09, G:0.23, T:0.23
Consensus pattern (56 bp):
ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
Found at i:5647900 original size:40 final size:40
Alignment explanation
Indices: 5647709--5647893 Score: 207
Period size: 40 Copynumber: 4.7 Consensus size: 40
5647699 TCGAATGATG
* * * *
5647709 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* * * *
5647749 TCCGGACTAAGAT-CCGAAAGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
5647789 TCCGGGCTAAG-CCCGAAGGTATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
5647828 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
5647869 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
5647894 AACGAGTAGC
Statistics
Matches: 121, Mismatches: 19, Indels: 10
0.81 0.13 0.07
Matches are distributed among these distances:
39 32 0.26
40 79 0.65
41 10 0.08
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:5647915 original size:79 final size:79
Alignment explanation
Indices: 5647762--5647926 Score: 183
Period size: 79 Copynumber: 2.1 Consensus size: 79
5647752 GGACTAAGAT
* * * **
5647762 CCGAAAGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGTATTGGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAA
*
5647827 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
* * *
5647841 CCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCATTTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTGGAACGAGTTA-C
* *
5647904 TATATCC-GGTTAAATT
63 TAAATCCGGGTTAAATC
5647920 CCGAAGG
1 CCGAAGG
5647927 TACGTGATTT
Statistics
Matches: 72, Mismatches: 11, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
78 2 0.03
79 47 0.65
80 23 0.32
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.25
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAA
ATCCGGGTTAAATC
Found at i:5649886 original size:14 final size:14
Alignment explanation
Indices: 5649865--5649905 Score: 55
Period size: 14 Copynumber: 2.9 Consensus size: 14
5649855 TTGCAACTTG
5649865 CACAACTTGCACAT
1 CACAACTTGCACAT
** *
5649879 TGCAACTTGCAAAT
1 CACAACTTGCACAT
5649893 CACAACTTGCACA
1 CACAACTTGCACA
5649906 ATTAGGTTAG
Statistics
Matches: 21, Mismatches: 6, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.37, C:0.32, G:0.10, T:0.22
Consensus pattern (14 bp):
CACAACTTGCACAT
Found at i:5655114 original size:4 final size:4
Alignment explanation
Indices: 5655105--5655139 Score: 52
Period size: 4 Copynumber: 8.8 Consensus size: 4
5655095 GAAATCAAAT
* *
5655105 ATAC ATAC ATAC ATAC ATAC ATGC ATAC ATGC ATA
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATA
5655140 TAAATGAAAT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
4 27 1.00
ACGTcount: A:0.46, C:0.23, G:0.06, T:0.26
Consensus pattern (4 bp):
ATAC
Found at i:5655311 original size:40 final size:40
Alignment explanation
Indices: 5655265--5655343 Score: 158
Period size: 40 Copynumber: 2.0 Consensus size: 40
5655255 AAACAGTAAT
5655265 TAGATAGTAATGAAACAAAGTTAACCTTGGGTTTTTGTAC
1 TAGATAGTAATGAAACAAAGTTAACCTTGGGTTTTTGTAC
5655305 TAGATAGTAATGAAACAAAGTTAACCTTGGGTTTTTGTA
1 TAGATAGTAATGAAACAAAGTTAACCTTGGGTTTTTGTA
5655344 TTTTACTTTC
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 39 1.00
ACGTcount: A:0.35, C:0.09, G:0.20, T:0.35
Consensus pattern (40 bp):
TAGATAGTAATGAAACAAAGTTAACCTTGGGTTTTTGTAC
Found at i:5656407 original size:48 final size:48
Alignment explanation
Indices: 5656355--5656463 Score: 110
Period size: 49 Copynumber: 2.2 Consensus size: 48
5656345 ATGACTCGAT
* * *
5656355 AATGATGATTTTACTGTTTGCATATTCTACCATCCCGAGTGGCCCAAC
1 AATGATGATTTTAATATTTGCATATTCTACCATCCCGAGCGGCCCAAC
* * * * ** *
5656403 AATGATGGCTTTGAATATTTGCATGTTCTATCATCTTGAGCGGCCTAAC
1 AATGAT-GATTTTAATATTTGCATATTCTACCATCCCGAGCGGCCCAAC
*
5656452 AATGATGGTTTT
1 AATGATGATTTT
5656464 GAATCATTAT
Statistics
Matches: 48, Mismatches: 12, Indels: 2
0.77 0.19 0.03
Matches are distributed among these distances:
48 10 0.21
49 38 0.79
ACGTcount: A:0.25, C:0.19, G:0.19, T:0.37
Consensus pattern (48 bp):
AATGATGATTTTAATATTTGCATATTCTACCATCCCGAGCGGCCCAAC
Found at i:5656453 original size:49 final size:49
Alignment explanation
Indices: 5656371--5656467 Score: 131
Period size: 49 Copynumber: 2.0 Consensus size: 49
5656361 GATTTTACTG
*
5656371 TTTGCATATTCTACCATCCCGAGTGGCCCAACAATGATGGCTTTGAATA
1 TTTGCATATTCTACCATCCCGAGCGGCCCAACAATGATGGCTTTGAATA
* * ** * *
5656420 TTTGCATGTTCTATCATCTTGAGCGGCCTAACAATGATGGTTTTGAAT
1 TTTGCATATTCTACCATCCCGAGCGGCCCAACAATGATGGCTTTGAAT
5656468 CATTATATCA
Statistics
Matches: 41, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
49 41 1.00
ACGTcount: A:0.25, C:0.21, G:0.20, T:0.35
Consensus pattern (49 bp):
TTTGCATATTCTACCATCCCGAGCGGCCCAACAATGATGGCTTTGAATA
Found at i:5657327 original size:20 final size:20
Alignment explanation
Indices: 5657284--5657323 Score: 64
Period size: 19 Copynumber: 2.0 Consensus size: 20
5657274 GGTTAACATT
5657284 AGTTAAATATTAATTAATTA
1 AGTTAAATATTAATTAATTA
*
5657304 AGTTAATTA-TAATTAATTA
1 AGTTAAATATTAATTAATTA
5657323 A
1 A
5657324 AGTTTAATCT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 11 0.58
20 8 0.42
ACGTcount: A:0.50, C:0.00, G:0.05, T:0.45
Consensus pattern (20 bp):
AGTTAAATATTAATTAATTA
Found at i:5659690 original size:35 final size:35
Alignment explanation
Indices: 5659647--5659811 Score: 215
Period size: 35 Copynumber: 4.7 Consensus size: 35
5659637 TCCATAGAAA
* *
5659647 AGTTGTGAAATGTAGGTATGGTATCATCCATACTG
1 AGTTGTGAAACGTAGGTATGGTATTATCCATACTG
* *
5659682 ATTTGTGAAACGTAGGTATGGTATTAACCATACTG
1 AGTTGTGAAACGTAGGTATGGTATTATCCATACTG
*
5659717 AGTTGTGAAACATAGGTATGGTATTATCCATACTG
1 AGTTGTGAAACGTAGGTATGGTATTATCCATACTG
** ** *
5659752 AGTTAAGAAACGTAGGTATGAAATT-TCCCATACCG
1 AGTTGTGAAACGTAGGTATGGTATTAT-CCATACTG
*
5659787 AGTTGTGAAATGTAGGTATGGTATT
1 AGTTGTGAAACGTAGGTATGGTATT
5659812 TCAACGAGGA
Statistics
Matches: 111, Mismatches: 18, Indels: 2
0.85 0.14 0.02
Matches are distributed among these distances:
34 1 0.01
35 110 0.99
ACGTcount: A:0.32, C:0.11, G:0.24, T:0.33
Consensus pattern (35 bp):
AGTTGTGAAACGTAGGTATGGTATTATCCATACTG
Found at i:5660210 original size:5 final size:5
Alignment explanation
Indices: 5660200--5660231 Score: 57
Period size: 5 Copynumber: 6.6 Consensus size: 5
5660190 TTGTGTGTTC
5660200 TTTAT TTTAT TTTA- TTTAT TTTAT TTTAT TTT
1 TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTT
5660232 TCACAAATTG
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
4 4 0.15
5 22 0.85
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (5 bp):
TTTAT
Found at i:5660219 original size:14 final size:14
Alignment explanation
Indices: 5660200--5660230 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
5660190 TTGTGTGTTC
5660200 TTTATTTTATTTTA
1 TTTATTTTATTTTA
5660214 TTTATTTTATTTTA
1 TTTATTTTATTTTA
5660228 TTT
1 TTT
5660231 TTCACAAATT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (14 bp):
TTTATTTTATTTTA
Found at i:5664663 original size:5 final size:5
Alignment explanation
Indices: 5664653--5664680 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
5664643 TTGTGTGTTC
5664653 TTTAT TTTAT TTTAT TTTAT TTTAT TTT
1 TTTAT TTTAT TTTAT TTTAT TTTAT TTT
5664681 CATAGTTTCC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (5 bp):
TTTAT
Found at i:5676669 original size:56 final size:56
Alignment explanation
Indices: 5676603--5676716 Score: 210
Period size: 56 Copynumber: 2.0 Consensus size: 56
5676593 AGAAACAGTA
*
5676603 TAGACATTGTCTAAGCCTTTGTTCCAGTCCATAACAAAGCTTTTATCTATCATGGC
1 TAGAAATTGTCTAAGCCTTTGTTCCAGTCCATAACAAAGCTTTTATCTATCATGGC
*
5676659 TAGAAATTGTCTAAGCCTTTGTTCCAGTCTATAACAAAGCTTTTATCTATCATGGC
1 TAGAAATTGTCTAAGCCTTTGTTCCAGTCCATAACAAAGCTTTTATCTATCATGGC
5676715 TA
1 TA
5676717 CTGTCATGAG
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
56 56 1.00
ACGTcount: A:0.28, C:0.21, G:0.14, T:0.37
Consensus pattern (56 bp):
TAGAAATTGTCTAAGCCTTTGTTCCAGTCCATAACAAAGCTTTTATCTATCATGGC
Found at i:5684684 original size:5 final size:4
Alignment explanation
Indices: 5684650--5684691 Score: 50
Period size: 4 Copynumber: 10.2 Consensus size: 4
5684640 TAAGGTTAAC
*
5684650 ATTA GTTA ATT- ATTA ATTA ATTA ACTTA ATATA ATTA ATTA A
1 ATTA ATTA ATTA ATTA ATTA ATTA A-TTA AT-TA ATTA ATTA A
5684692 AGTTTAATCT
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
3 3 0.09
4 22 0.67
5 8 0.24
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.48
Consensus pattern (4 bp):
ATTA
Found at i:5685822 original size:23 final size:21
Alignment explanation
Indices: 5685772--5685822 Score: 57
Period size: 21 Copynumber: 2.3 Consensus size: 21
5685762 AGCAAGTTAG
*
5685772 ATAGAAGGTCTGAGTAAGAAA
1 ATAGATGGTCTGAGTAAGAAA
* *
5685793 ATTGATGGTTTGAGTAAGAATAA
1 ATAGATGGTCTGAGTAAG-A-AA
5685816 ATAGATG
1 ATAGATG
5685823 AATCCAGTAA
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
21 15 0.62
22 1 0.04
23 8 0.33
ACGTcount: A:0.43, C:0.02, G:0.27, T:0.27
Consensus pattern (21 bp):
ATAGATGGTCTGAGTAAGAAA
Found at i:5701943 original size:59 final size:59
Alignment explanation
Indices: 5701866--5701989 Score: 230
Period size: 59 Copynumber: 2.1 Consensus size: 59
5701856 TGAGCAAATT
5701866 ACTTAAACACAAGGCATAAGTCAGGGATTTTCAAATAATCATATAAATAACCTCCCCAC
1 ACTTAAACACAAGGCATAAGTCAGGGATTTTCAAATAATCATATAAATAACCTCCCCAC
*
5701925 ACTTAAACATAAGGCATAAGTCAGGGATTTTCAAATAATCATATAAATAACCTCCCCAC
1 ACTTAAACACAAGGCATAAGTCAGGGATTTTCAAATAATCATATAAATAACCTCCCCAC
*
5701984 ATTTAA
1 ACTTAA
5701990 GATGTACATT
Statistics
Matches: 63, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
59 63 1.00
ACGTcount: A:0.43, C:0.22, G:0.10, T:0.26
Consensus pattern (59 bp):
ACTTAAACACAAGGCATAAGTCAGGGATTTTCAAATAATCATATAAATAACCTCCCCAC
Found at i:5702263 original size:6 final size:6
Alignment explanation
Indices: 5702238--5702348 Score: 98
Period size: 6 Copynumber: 18.5 Consensus size: 6
5702228 AATAAAGTTC
* * * **
5702238 AAAATAT AAAAA- CAAAAT AAACAT AAAAAG AAAAAT AAAAAT AAACCT
1 AAAA-AT AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT
* * * **
5702286 AAAAAT AAACAT AAAGAG AAAAAT AAAAAT AAACCT AAAAAT AAAAAT
1 AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT
* *
5702334 AAACAT AAAGAT AAA
1 AAAAAT AAAAAT AAA
5702349 TGTACTCAAT
Statistics
Matches: 82, Mismatches: 21, Indels: 3
0.77 0.20 0.03
Matches are distributed among these distances:
5 4 0.05
6 74 0.90
7 4 0.05
ACGTcount: A:0.75, C:0.07, G:0.04, T:0.14
Consensus pattern (6 bp):
AAAAAT
Found at i:5702292 original size:36 final size:36
Alignment explanation
Indices: 5702251--5702336 Score: 154
Period size: 36 Copynumber: 2.4 Consensus size: 36
5702241 ATATAAAAAC
5702251 AAAATAAACATAAAAAGAAAAATAAAAATAAACCTA
1 AAAATAAACATAAAAAGAAAAATAAAAATAAACCTA
*
5702287 AAAATAAACATAAAGAGAAAAATAAAAATAAACCTA
1 AAAATAAACATAAAAAGAAAAATAAAAATAAACCTA
*
5702323 AAAATAAAAATAAA
1 AAAATAAACATAAA
5702337 CATAAAGATA
Statistics
Matches: 48, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
36 48 1.00
ACGTcount: A:0.76, C:0.07, G:0.03, T:0.14
Consensus pattern (36 bp):
AAAATAAACATAAAAAGAAAAATAAAAATAAACCTA
Found at i:5702337 original size:18 final size:18
Alignment explanation
Indices: 5702251--5702348 Score: 115
Period size: 18 Copynumber: 5.4 Consensus size: 18
5702241 ATATAAAAAC
* * *
5702251 AAAATAAACATAAAAAGA
1 AAAATAAAAATAAACATA
*
5702269 AAAATAAAAATAAACCTA
1 AAAATAAAAATAAACATA
* * *
5702287 AAAATAAACATAAAGAGA
1 AAAATAAAAATAAACATA
*
5702305 AAAATAAAAATAAACCTA
1 AAAATAAAAATAAACATA
5702323 AAAATAAAAATAAACATA
1 AAAATAAAAATAAACATA
*
5702341 AAGATAAA
1 AAAATAAA
5702349 TGTACTCAAT
Statistics
Matches: 66, Mismatches: 14, Indels: 0
0.82 0.17 0.00
Matches are distributed among these distances:
18 66 1.00
ACGTcount: A:0.74, C:0.07, G:0.04, T:0.14
Consensus pattern (18 bp):
AAAATAAAAATAAACATA
Found at i:5704218 original size:18 final size:17
Alignment explanation
Indices: 5704195--5704236 Score: 52
Period size: 16 Copynumber: 2.5 Consensus size: 17
5704185 CCGTGCGGGT
5704195 AAGAGGAAAATGGGGAGA
1 AAGAGGAAAA-GGGGAGA
*
5704213 AAGAGG-AGAGGGGAGA
1 AAGAGGAAAAGGGGAGA
5704229 AAG-GGAAA
1 AAGAGGAAA
5704237 GAAAGGGGAA
Statistics
Matches: 21, Mismatches: 2, Indels: 4
0.78 0.07 0.15
Matches are distributed among these distances:
15 2 0.10
16 11 0.52
17 2 0.10
18 6 0.29
ACGTcount: A:0.50, C:0.00, G:0.48, T:0.02
Consensus pattern (17 bp):
AAGAGGAAAAGGGGAGA
Found at i:5704280 original size:11 final size:11
Alignment explanation
Indices: 5704226--5704280 Score: 51
Period size: 11 Copynumber: 4.9 Consensus size: 11
5704216 AGGAGAGGGG
5704226 AGAAAG-GGAA
1 AGAAAGAGGAA
*
5704236 AGAAAGGGGAA
1 AGAAAGAGGAA
*
5704247 AGAAAGAAAGAA
1 AGAAAG-AGGAA
5704259 A-AAAGGAAGGAA
1 AGAAA-G-AGGAA
5704271 AGAAAGAGGA
1 AGAAAGAGGA
5704281 TAAGGGGAAA
Statistics
Matches: 38, Mismatches: 3, Indels: 7
0.79 0.06 0.15
Matches are distributed among these distances:
10 6 0.16
11 17 0.45
12 12 0.32
13 3 0.08
ACGTcount: A:0.64, C:0.00, G:0.36, T:0.00
Consensus pattern (11 bp):
AGAAAGAGGAA
Found at i:5704703 original size:30 final size:30
Alignment explanation
Indices: 5704669--5704726 Score: 73
Period size: 30 Copynumber: 1.9 Consensus size: 30
5704659 TAGGTACTTC
* *
5704669 CACACGGGT-GATCTACACGCCCGTGTGTGA
1 CACACGGGTAGA-CCACACGCCCATGTGTGA
*
5704699 CACACTGGTAGACCACACGCCCATGTGT
1 CACACGGGTAGACCACACGCCCATGTGT
5704727 CATGGTCGTG
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
30 22 0.92
31 2 0.08
ACGTcount: A:0.22, C:0.33, G:0.26, T:0.19
Consensus pattern (30 bp):
CACACGGGTAGACCACACGCCCATGTGTGA
Found at i:5709795 original size:35 final size:35
Alignment explanation
Indices: 5709624--5709822 Score: 263
Period size: 35 Copynumber: 5.7 Consensus size: 35
5709614 TCCATGGAAA
* * *
5709624 AGTTGTGAAACTTAGGTATGGTATCATCCATACTG
1 AGTTGTGAAACGTAGGTATGGTATTAACCATACTG
*
5709659 AGTTGTGAAACGTAGGTATGGTATTAACCATGCTG
1 AGTTGTGAAACGTAGGTATGGTATTAACCATACTG
5709694 AGTTGTGAAACGTAGGTATGGTATTAACCATACTG
1 AGTTGTGAAACGTAGGTATGGTATTAACCATACTG
* *
5709729 AGTTGTGGAACGTAGGTATGGTATTATCCATACTG
1 AGTTGTGAAACGTAGGTATGGTATTAACCATACTG
** ** * ** *
5709764 AGTTAAGAAACGTAGGTACCGCATTTCCCATACCG
1 AGTTGTGAAACGTAGGTATGGTATTAACCATACTG
*
5709799 AGTTGTGAAATGTAGGTATGGTAT
1 AGTTGTGAAACGTAGGTATGGTAT
5709823 GTCAATGAGG
Statistics
Matches: 142, Mismatches: 22, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
35 142 1.00
ACGTcount: A:0.29, C:0.13, G:0.26, T:0.32
Consensus pattern (35 bp):
AGTTGTGAAACGTAGGTATGGTATTAACCATACTG
Found at i:5712579 original size:49 final size:53
Alignment explanation
Indices: 5712492--5712592 Score: 138
Period size: 55 Copynumber: 1.9 Consensus size: 53
5712482 TATTAGTGTT
5712492 AGAAAAAAAATGACTATTGAGTCTACTAAACTTGATGTTCAAGTCACTAATCTGC
1 AGAAAAAAAATGACTATTGAG-CTACT-AACTTGATGTTCAAGTCACTAATCTGC
* *
5712547 AGAAAAAAAATGACTGTTGAG-T-CT-AC-TGATGTTCAAGTCATTAATC
1 AGAAAAAAAATGACTATTGAGCTACTAACTTGATGTTCAAGTCACTAATC
5712593 CGCTAGGGCA
Statistics
Matches: 44, Mismatches: 2, Indels: 6
0.85 0.04 0.12
Matches are distributed among these distances:
49 19 0.43
50 2 0.05
52 2 0.05
53 1 0.02
55 20 0.45
ACGTcount: A:0.40, C:0.15, G:0.16, T:0.30
Consensus pattern (53 bp):
AGAAAAAAAATGACTATTGAGCTACTAACTTGATGTTCAAGTCACTAATCTGC
Found at i:5716057 original size:12 final size:12
Alignment explanation
Indices: 5716042--5716073 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
5716032 ATCGAACCAT
5716042 AAATATTTTTAA
1 AAATATTTTTAA
*
5716054 AAATATTTTTAG
1 AAATATTTTTAA
5716066 AAATATTT
1 AAATATTT
5716074 ATGGCATAGC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (12 bp):
AAATATTTTTAA
Found at i:5726935 original size:35 final size:35
Alignment explanation
Indices: 5726896--5727057 Score: 200
Period size: 35 Copynumber: 4.6 Consensus size: 35
5726886 ATAGAAAAGC
* *
5726896 TGTGAAACGTAGGTATGGTATCATCCATACTGATT
1 TGTGAAACGTAGGTATGGTATTATCCATACTGAGT
* *
5726931 TGTGAAACATAGGTATGGTATTAACCATACTGAGT
1 TGTGAAACGTAGGTATGGTATTATCCATACTGAGT
5726966 TGTGAAACGTAGGTATGGTATTATCCATACTGAGT
1 TGTGAAACGTAGGTATGGTATTATCCATACTGAGT
** ** *
5727001 TAAGAAACGTAGGTATGACATT-TCCCATACCGAGT
1 TGTGAAACGTAGGTATGGTATTAT-CCATACTGAGT
* * *
5727036 TGTGAAATGCAGGTGTGGTATT
1 TGTGAAACGTAGGTATGGTATT
5727058 TCAATAAGGA
Statistics
Matches: 108, Mismatches: 18, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
34 1 0.01
35 107 0.99
ACGTcount: A:0.30, C:0.13, G:0.25, T:0.32
Consensus pattern (35 bp):
TGTGAAACGTAGGTATGGTATTATCCATACTGAGT
Found at i:5732042 original size:4 final size:4
Alignment explanation
Indices: 5732033--5732063 Score: 62
Period size: 4 Copynumber: 7.8 Consensus size: 4
5732023 GAAATCAAAT
5732033 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATA
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATA
5732064 TAAATGAAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 27 1.00
ACGTcount: A:0.52, C:0.23, G:0.00, T:0.26
Consensus pattern (4 bp):
ATAC
Found at i:5738467 original size:49 final size:49
Alignment explanation
Indices: 5738391--5738510 Score: 132
Period size: 49 Copynumber: 2.4 Consensus size: 49
5738381 TCTCGGATGA
* * * * * *
5738391 CCCAAAAATGATGACTTTTACTGTTTGCATGTTCTACCATCCCAAGTGG
1 CCCAACAATGATGGCTTTGAATATTTGCATATTCTACCATCCCAAGTGG
* * ***
5738440 CCCAACAATGATGGCTTTGAATATTTGCATATTTTATCATCTTGAGTGG
1 CCCAACAATGATGGCTTTGAATATTTGCATATTCTACCATCCCAAGTGG
*
5738489 CCTAACAATGATGGCTTTGAAT
1 CCCAACAATGATGGCTTTGAAT
5738511 CATTATATCG
Statistics
Matches: 59, Mismatches: 12, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
49 59 1.00
ACGTcount: A:0.28, C:0.20, G:0.17, T:0.35
Consensus pattern (49 bp):
CCCAACAATGATGGCTTTGAATATTTGCATATTCTACCATCCCAAGTGG
Found at i:5755708 original size:9 final size:9
Alignment explanation
Indices: 5755694--5755722 Score: 58
Period size: 9 Copynumber: 3.2 Consensus size: 9
5755684 GGCTTCATTG
5755694 CAACTTGCA
1 CAACTTGCA
5755703 CAACTTGCA
1 CAACTTGCA
5755712 CAACTTGCA
1 CAACTTGCA
5755721 CA
1 CA
5755723 TTGCAACTTG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.34, C:0.34, G:0.10, T:0.21
Consensus pattern (9 bp):
CAACTTGCA
Found at i:5757485 original size:93 final size:93
Alignment explanation
Indices: 5757326--5757496 Score: 234
Period size: 93 Copynumber: 1.8 Consensus size: 93
5757316 GGATGGTTGA
* * **** * *
5757326 GCATCCGAACTCGTTGAGTTGAGTTCGAGTTCACTTACGGATGCGAATGTTCGAACTCGTTGAGT
1 GCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTACGGATGCGAACACCCGAACTCATTAAGT
*
5757391 TGAGTTCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* * *
5757419 GCATCCGAACTCATTGATTTGAGTCCGAGTTCACTTATGGATGCGAACACCCGAGCTCATTAAGT
1 GCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTACGGATGCGAACACCCGAACTCATTAAGT
5757484 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
5757497 ACTTAGGGGC
Statistics
Matches: 66, Mismatches: 12, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
93 66 1.00
ACGTcount: A:0.23, C:0.20, G:0.26, T:0.30
Consensus pattern (93 bp):
GCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTACGGATGCGAACACCCGAACTCATTAAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:5765026 original size:93 final size:93
Alignment explanation
Indices: 5764857--5765027 Score: 245
Period size: 93 Copynumber: 1.8 Consensus size: 93
5764847 GGATGGTTGA
* * *
5764857 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTACGGATGCGAATGTTCGAACTCATTAAGT
1 GCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTACGGATGCGAACGCTCGAACTCATTAAGT
5764922 TGAGTCCGAGTTCGTGAGATATAACTAG
66 TGAGTCCGAGTTCGTGAGATATAACTAG
* * * * *
5764950 GCATTCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC-CTGAGCTCGTTGAG
1 GCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTACGGATGCGAACGCTC-GAACTCATTAAG
*
5765014 TTGAGTCTGAGTTC
65 TTGAGTCCGAGTTC
5765028 ACTTAGGGGT
Statistics
Matches: 68, Mismatches: 9, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
92 1 0.01
93 67 0.99
ACGTcount: A:0.23, C:0.20, G:0.27, T:0.30
Consensus pattern (93 bp):
GCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTACGGATGCGAACGCTCGAACTCATTAAGT
TGAGTCCGAGTTCGTGAGATATAACTAG
Found at i:5770355 original size:37 final size:37
Alignment explanation
Indices: 5770305--5770383 Score: 115
Period size: 37 Copynumber: 2.1 Consensus size: 37
5770295 TTATTATGAA
* *
5770305 GTCTTACCCGGACATAA-TCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATTC-CCACACGAAGTCATCGG
*
5770342 GTCTTACCCGGACAAAATTCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATTCCCACACGAAGTCATCGG
5770379 GTCTT
1 GTCTT
5770384 TAGAGCTCGG
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
37 36 0.95
38 2 0.05
ACGTcount: A:0.25, C:0.30, G:0.19, T:0.25
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATTCCCACACGAAGTCATCGG
Found at i:5770580 original size:47 final size:47
Alignment explanation
Indices: 5770502--5770975 Score: 768
Period size: 47 Copynumber: 10.1 Consensus size: 47
5770492 CCCTTCGGGA
* * * * * * *
5770502 CTTATCACATTTATGCACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*** * *
5770549 CCCGTCACAAATATACAGTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
5770596 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
5770643 CTTATTACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
5770690 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
5770737 CTTATTACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
5770784 CTTATCACATATATACACTTTCACATTCATCAAATCCGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
5770831 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
5770878 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
5770925 CTTATCACATATATACACTTTCACATGCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
5770972 CTTA
1 CTTA
5770976 CTATCATTTC
Statistics
Matches: 397, Mismatches: 30, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
47 397 1.00
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:5784405 original size:25 final size:25
Alignment explanation
Indices: 5784358--5784405 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 25
5784348 GTCCATTCCC
* *
5784358 AAAATCACATCAAATTCATCAAATG
1 AAAATAACATCAAATTCACCAAATG
5784383 AAAATAACATCAAA-TCAGCCAAA
1 AAAATAACATCAAATTCA-CCAAA
5784406 AAGTAATAAC
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 3 0.15
25 17 0.85
ACGTcount: A:0.56, C:0.21, G:0.04, T:0.19
Consensus pattern (25 bp):
AAAATAACATCAAATTCACCAAATG
Found at i:5787340 original size:62 final size:63
Alignment explanation
Indices: 5787261--5787383 Score: 239
Period size: 62 Copynumber: 2.0 Consensus size: 63
5787251 TTTGCCCTTA
5787261 ACTTTTCAACATTTTACAATTAAGTCCCTAGGCTTTTAAAATGAATTTCATTCAATTTCATAG
1 ACTTTTCAACATTTTACAATTAAGTCCCTAGGCTTTTAAAATGAATTTCATTCAATTTCATAG
5787324 ACTTTT-AACATTTTACAATTAAGTCCCTAGGCTTTTAAAATGAATTTCATTCAATTTCAT
1 ACTTTTCAACATTTTACAATTAAGTCCCTAGGCTTTTAAAATGAATTTCATTCAATTTCAT
5787384 TAAATTGAAT
Statistics
Matches: 60, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
62 54 0.90
63 6 0.10
ACGTcount: A:0.33, C:0.17, G:0.07, T:0.42
Consensus pattern (63 bp):
ACTTTTCAACATTTTACAATTAAGTCCCTAGGCTTTTAAAATGAATTTCATTCAATTTCATAG
Found at i:5787361 original size:30 final size:30
Alignment explanation
Indices: 5787262--5787361 Score: 96
Period size: 30 Copynumber: 3.2 Consensus size: 30
5787252 TTGCCCTTAA
5787262 CTTTTCAACATTTTACAATTAAGTCCCTAGG
1 CTTTT-AACATTTTACAATTAAGTCCCTAGG
* * * * *
5787293 CTTTTAAAATGAATTT-C-ATTCAATTTCATAGA
1 CTTTTAACAT---TTTACAATT-AAGTCCCTAGG
5787325 CTTTTAACATTTTACAATTAAGTCCCTAGG
1 CTTTTAACATTTTACAATTAAGTCCCTAGG
5787355 CTTTTAA
1 CTTTTAA
5787362 AATGAATTTC
Statistics
Matches: 53, Mismatches: 10, Indels: 13
0.70 0.13 0.17
Matches are distributed among these distances:
29 3 0.06
30 19 0.36
31 11 0.21
32 17 0.32
33 3 0.06
ACGTcount: A:0.32, C:0.18, G:0.08, T:0.42
Consensus pattern (30 bp):
CTTTTAACATTTTACAATTAAGTCCCTAGG
Found at i:5790089 original size:27 final size:27
Alignment explanation
Indices: 5790041--5790092 Score: 68
Period size: 27 Copynumber: 1.9 Consensus size: 27
5790031 CCCAATTCAA
* * *
5790041 TAAAATGATTGTTATACTCCTATGAGG
1 TAAAATGACTGATATACCCCTATGAGG
*
5790068 TAAAATGACTGATATGCCCCTATGA
1 TAAAATGACTGATATACCCCTATGA
5790093 TATATATGAA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 21 1.00
ACGTcount: A:0.35, C:0.15, G:0.17, T:0.33
Consensus pattern (27 bp):
TAAAATGACTGATATACCCCTATGAGG
Found at i:5791480 original size:12 final size:12
Alignment explanation
Indices: 5791463--5791488 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
5791453 CATTCCGAAG
5791463 TATATATATACA
1 TATATATATACA
5791475 TATATATATACA
1 TATATATATACA
5791487 TA
1 TA
5791489 AGTATGCCAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.50, C:0.08, G:0.00, T:0.42
Consensus pattern (12 bp):
TATATATATACA
Found at i:5792000 original size:27 final size:27
Alignment explanation
Indices: 5791969--5792145 Score: 196
Period size: 27 Copynumber: 6.6 Consensus size: 27
5791959 TAAATTGTAC
5791969 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
5791996 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
5792022 ATG-ACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
5792049 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
5792077 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
5792104 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
5792131 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
5792146 GACTCAATAT
Statistics
Matches: 127, Mismatches: 19, Indels: 8
0.82 0.12 0.05
Matches are distributed among these distances:
26 21 0.17
27 83 0.65
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:5792031 original size:53 final size:55
Alignment explanation
Indices: 5791969--5792145 Score: 191
Period size: 53 Copynumber: 3.3 Consensus size: 55
5791959 TAAATTGTAC
*
5791969 AGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGA-AATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAGAATGAATATGT
* * ** ** *
5792022 ATG-ACTAAGTGTGCGAATTGACCATGCGGCACTAAGTGTGCGAGTTTGACTATGT
1 A-GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAGAATGAATATGT
* * * * *
5792077 AGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTGTGCGAG-TTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAGAATGAATATGT
*
5792131 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
5792146 GACTCAATAT
Statistics
Matches: 104, Mismatches: 16, Indels: 7
0.82 0.13 0.06
Matches are distributed among these distances:
53 37 0.36
54 31 0.30
55 36 0.35
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (55 bp):
AGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAGAATGAATATGT
Found at i:5800106 original size:27 final size:27
Alignment explanation
Indices: 5800075--5800252 Score: 214
Period size: 27 Copynumber: 6.6 Consensus size: 27
5800065 TAAATTGTAC
5800075 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
5800102 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* *
5800128 ATGCACTAAGTGTGCGAATTGACCATGT
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
5800156 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
5800184 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
5800211 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
5800238 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
5800253 GACTCAATAT
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:5800189 original size:82 final size:81
Alignment explanation
Indices: 5800076--5800231 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
5800066 AAATTGTACA
* *
5800076 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
5800140 TGCGAATTGACCATGTG
65 TGCGAATTGACCATGTG
** *
5800157 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
5800222 TGCGAGTTGA
65 TGCGAATTGA
5800232 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGTG
Found at i:5800243 original size:82 final size:81
Alignment explanation
Indices: 5800075--5800252 Score: 232
Period size: 82 Copynumber: 2.2 Consensus size: 81
5800065 TAAATTGTAC
* *
5800075 AGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAAGTG
1 AGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAAGTG
*
5800140 TGCGAATTGACCATGT
66 TGCGAATTGACCATAT
* ** *
5800156 GGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACTAAG
1 AGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACTAAG
* **
5800220 TGTGCGAGTTGATTATAT
64 TGTGCGAATTGACCATAT
*
5800238 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
5800253 GACTCAATAT
Statistics
Matches: 83, Mismatches: 12, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
81 16 0.19
82 67 0.81
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
AGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAAGTG
TGCGAATTGACCATAT
Found at i:5801904 original size:40 final size:41
Alignment explanation
Indices: 5801847--5801997 Score: 206
Period size: 40 Copynumber: 3.8 Consensus size: 41
5801837 TTGAATGATG
* *
5801847 TCCGGGCTAAG-TCCCGAAGGC-TTTGTGCTA-AGTGACCATA
1 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGA-TGACCATA
5801887 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGATG--CATA
1 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGATGACCATA
* *
5801926 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGAT-ACTAAA
1 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGATGACCATA
5801966 TCCGGACTAAGATCCGAAGGCATTTGTGCGAG
1 TCCGGACTAAGATCCGAAGGCATTTGTGCGAG
5801998 TTCCTAAATC
Statistics
Matches: 102, Mismatches: 4, Indels: 10
0.88 0.03 0.09
Matches are distributed among these distances:
39 38 0.37
40 52 0.51
41 11 0.11
42 1 0.01
ACGTcount: A:0.27, C:0.22, G:0.28, T:0.23
Consensus pattern (41 bp):
TCCGGACTAAGATCCGAAGGCATTTGTGCGAGATGACCATA
Found at i:5802005 original size:40 final size:40
Alignment explanation
Indices: 5801886--5802071 Score: 227
Period size: 40 Copynumber: 4.7 Consensus size: 40
5801876 AAGTGACCAT
* *
5801886 ATCCGGACTAAGATCCGAAGGCATTTGTGCGAGATGC-AT
1 ATCCGGACTAAGATCCGAAGGCATTTGTGCGAGATACTAA
5801925 ATCCGGACTAAGATCCGAAGGCATTTGTGCGAGATACTAA
1 ATCCGGACTAAGATCCGAAGGCATTTGTGCGAGATACTAA
* *
5801965 ATCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTCCTAA
1 ATCCGGACTAAGATCCGAAGGCATTTGTGCGAGATACTAA
** * *
5802005 ATCCGGGTTAAG-TCCCGAAGGCAATTGTGCGAGTTACTATA
1 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTA-A
* *
5802046 A-CCGGGCTATG-TCCCGAAGGCATTTG
1 ATCCGGACTAAGAT-CCGAAGGCATTTG
5802072 AACGAGGAGC
Statistics
Matches: 133, Mismatches: 11, Indels: 5
0.89 0.07 0.03
Matches are distributed among these distances:
39 37 0.28
40 94 0.71
41 2 0.02
ACGTcount: A:0.27, C:0.22, G:0.27, T:0.24
Consensus pattern (40 bp):
ATCCGGACTAAGATCCGAAGGCATTTGTGCGAGATACTAA
Found at i:5802063 original size:80 final size:79
Alignment explanation
Indices: 5801847--5802071 Score: 260
Period size: 80 Copynumber: 2.8 Consensus size: 79
5801837 TTGAATGATG
* * * *
5801847 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAACCGGACTAAGATCCGAAGGCATT
* *
5801911 TGTGCGAGATGCATA
65 TGTGCGAGATCCAAA
* *
5801926 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTA-AATCCGGACTAAGATCCGAAGGCAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATAA-CCGGACTAAGATCCGAAGGCAT
*
5801989 TTGTGCGAGTTCCTAAA
64 TTGTGCGAGATCC-AAA
* * * *
5802006 TCCGGGTTAAGTCCCGAAGGCAATTGTGCGAGTTACTATAACCGGGCTATG-TCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACCGGACTAAGAT-CCGAAGGCATT
5802070 TG
65 TG
5802072 AACGAGGAGC
Statistics
Matches: 124, Mismatches: 15, Indels: 13
0.82 0.10 0.09
Matches are distributed among these distances:
78 1 0.01
79 58 0.47
80 63 0.51
81 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.24
Consensus pattern (79 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACCGGACTAAGATCCGAAGGCATTT
GTGCGAGATCCAAA
Found at i:5814112 original size:46 final size:46
Alignment explanation
Indices: 5814055--5814278 Score: 206
Period size: 46 Copynumber: 4.8 Consensus size: 46
5814045 TAGGATGGTT
* * * *
5814055 GAACATCCGAACTCGTTGAGATGAGTCCGAGTTCACTTACGGATGC
1 GAACGTCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGC
* * * * * *
5814101 GAATGTTCGAACTCATTCAGTTGAGTCTGAGTTC-GTGA--GATG-
1 GAACGTCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGC
* **
5814143 TAACTAGGAATCCGAACTTGTTGAGTTGAGTCCGAGTTCACTTATGGATGC
1 GAAC---G--TCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGC
* * *
5814194 GAACGCCCGAGCTCATTGAGTTGAGTCCAAGTTCACTTATGGATGC
1 GAACGTCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGC
*
5814240 GAACG-CCTGAGCTCATTGAGTTGAGTCCGAGTTCACTTA
1 GAACGTCC-GAACTCATTGAGTTGAGTCCGAGTTCACTTA
5814279 GGGGCGGGTT
Statistics
Matches: 143, Mismatches: 25, Indels: 20
0.76 0.13 0.11
Matches are distributed among these distances:
42 2 0.01
43 4 0.03
45 5 0.03
46 98 0.69
47 24 0.17
48 3 0.02
50 4 0.03
51 3 0.02
ACGTcount: A:0.25, C:0.21, G:0.26, T:0.29
Consensus pattern (46 bp):
GAACGTCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGC
Found at i:5814227 original size:93 final size:93
Alignment explanation
Indices: 5814059--5814227 Score: 248
Period size: 93 Copynumber: 1.8 Consensus size: 93
5814049 ATGGTTGAAC
* **
5814059 ATCCGAACTCGTTGAGATGAGTCCGAGTTCACTTACGGATGCGAATGTTCGAACTCATTCAGTTG
1 ATCCGAACTCGTTGAGATGAGTCCGAGTTCACTTACGGATGCGAACGCCCGAACTCATTCAGTTG
**
5814124 AGTCTGAGTTCGTGAGATGTAACTAGGA
66 AGTCCAAGTTCGTGAGATGTAACTAGGA
* * * * *
5814152 ATCCGAACTTGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCATTGAGTTG
1 ATCCGAACTCGTTGAGATGAGTCCGAGTTCACTTACGGATGCGAACGCCCGAACTCATTCAGTTG
5814217 AGTCCAAGTTC
66 AGTCCAAGTTC
5814228 ACTTATGGAT
Statistics
Matches: 66, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
93 66 1.00
ACGTcount: A:0.24, C:0.20, G:0.27, T:0.29
Consensus pattern (93 bp):
ATCCGAACTCGTTGAGATGAGTCCGAGTTCACTTACGGATGCGAACGCCCGAACTCATTCAGTTG
AGTCCAAGTTCGTGAGATGTAACTAGGA
Found at i:5815149 original size:1 final size:1
Alignment explanation
Indices: 5815037--5815140 Score: 208
Period size: 1 Copynumber: 104.0 Consensus size: 1
5815027 CAAATTTCTA
5815037 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
5815102 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
5815141 ATTCTTTTTC
Statistics
Matches: 103, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 103 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:5817715 original size:14 final size:14
Alignment explanation
Indices: 5817694--5817734 Score: 55
Period size: 14 Copynumber: 2.9 Consensus size: 14
5817684 TTGCAACTTG
5817694 CACAACTTGCACAT
1 CACAACTTGCACAT
** *
5817708 TGCAACTTGCAAAT
1 CACAACTTGCACAT
5817722 CACAACTTGCACA
1 CACAACTTGCACA
5817735 ATCAGGTTAG
Statistics
Matches: 21, Mismatches: 6, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.37, C:0.32, G:0.10, T:0.22
Consensus pattern (14 bp):
CACAACTTGCACAT
Found at i:5819116 original size:4 final size:4
Alignment explanation
Indices: 5818871--5819108 Score: 413
Period size: 4 Copynumber: 59.5 Consensus size: 4
5818861 GAAATCAAAT
5818871 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
*
5818919 ATAC ATAT ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
5818967 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
* * * *
5819015 ATAC ATAC ATAC ATAC ATAC ATAT ATAC ATGC ATGC ATAC ATAC ATGC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
* *
5819063 ATGC ATGC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC AT
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC AT
5819109 GCATGCATAT
Statistics
Matches: 226, Mismatches: 8, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
4 226 1.00
ACGTcount: A:0.48, C:0.24, G:0.02, T:0.26
Consensus pattern (4 bp):
ATAC
Found at i:5819559 original size:19 final size:19
Alignment explanation
Indices: 5819524--5819565 Score: 68
Period size: 19 Copynumber: 2.2 Consensus size: 19
5819514 TATGGTTAAC
5819524 ATTAGTTAATTATTAATTA
1 ATTAGTTAATTATTAATTA
5819543 ATTATGTTAATTA-TAATTA
1 ATTA-GTTAATTATTAATTA
5819562 ATTA
1 ATTA
5819566 AAGTTTAATC
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
19 14 0.64
20 8 0.36
ACGTcount: A:0.43, C:0.00, G:0.05, T:0.52
Consensus pattern (19 bp):
ATTAGTTAATTATTAATTA
Found at i:5821241 original size:89 final size:89
Alignment explanation
Indices: 5821080--5821268 Score: 306
Period size: 89 Copynumber: 2.1 Consensus size: 89
5821070 ACACCCAACT
* *
5821080 TTAAAAAATCATTATTTATAGGTTTTTCCGGCATTCTAAGACATATGGTTGACCAAATAAGAAGA
1 TTAAGAAATCACTATTTATAGGTTTTTCCGGCATTCTAAGACATATGGTTGACCAAATAAGAAGA
* * *
5821145 TATGAGTGAATTGTCATAGAATGA
66 TAGGAGTGAATTGTCATAAAATAA
* * *
5821169 TTAAGAAATCACTATTTATAGGTTTTTCGGGCATTCTAAGACGTATGGTTGACCAAATAAGAATA
1 TTAAGAAATCACTATTTATAGGTTTTTCCGGCATTCTAAGACATATGGTTGACCAAATAAGAAGA
5821234 TAGGAGTGAATTGTCATAAAATAA
66 TAGGAGTGAATTGTCATAAAATAA
5821258 TTAAGAAATCA
1 TTAAGAAATCA
5821269 ACTTGAAAAA
Statistics
Matches: 92, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
89 92 1.00
ACGTcount: A:0.39, C:0.10, G:0.18, T:0.33
Consensus pattern (89 bp):
TTAAGAAATCACTATTTATAGGTTTTTCCGGCATTCTAAGACATATGGTTGACCAAATAAGAAGA
TAGGAGTGAATTGTCATAAAATAA
Found at i:5833899 original size:4 final size:4
Alignment explanation
Indices: 5833890--5834007 Score: 200
Period size: 4 Copynumber: 29.5 Consensus size: 4
5833880 GAAATCAAAT
* *
5833890 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ACAC ATAC ATAC ATGC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
* *
5833938 ATAC ATAC ATAC ATAC ATGC ATAC ATAC ATAC ATAT ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
5833986 ATAC ATAC ATAC ATAC ATAC AT
1 ATAC ATAC ATAC ATAC ATAC AT
5834008 GCATGCATGC
Statistics
Matches: 106, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
4 106 1.00
ACGTcount: A:0.48, C:0.25, G:0.02, T:0.25
Consensus pattern (4 bp):
ATAC
Found at i:5841995 original size:14 final size:13
Alignment explanation
Indices: 5841958--5841996 Score: 51
Period size: 13 Copynumber: 2.9 Consensus size: 13
5841948 TAAATTCAAA
5841958 TCTAAATAATTAT
1 TCTAAATAATTAT
* *
5841971 CCTTAATAATTAT
1 TCTAAATAATTAT
5841984 TCTAATATAATTA
1 TCTAA-ATAATTA
5841997 AACATTAAAT
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
13 14 0.67
14 7 0.33
ACGTcount: A:0.44, C:0.10, G:0.00, T:0.46
Consensus pattern (13 bp):
TCTAAATAATTAT
Found at i:5842586 original size:13 final size:13
Alignment explanation
Indices: 5842568--5842592 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
5842558 AATATGTCTT
5842568 TTTTTCTTTTTTC
1 TTTTTCTTTTTTC
5842581 TTTTTCTTTTTT
1 TTTTTCTTTTTT
5842593 TAATTTAATT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (13 bp):
TTTTTCTTTTTTC
Found at i:5842780 original size:96 final size:97
Alignment explanation
Indices: 5842610--5842793 Score: 244
Period size: 96 Copynumber: 1.9 Consensus size: 97
5842600 ATTTAATTTA
** * * *
5842610 TTTATTTTTACTTAGGAATATATCAAGCCCTTTGACACGAAGAGAGATAACAGCCAAGCACCCCA
1 TTTATTTTTACTTAAAAACATATCAAACCCTTTGACACGAAGAGAGATAACAACCAAGCACCCCA
* * *
5842675 CCTCGGTTACTTAGCCCAACATACTCCTAATT
66 CCCCAGTTACTCAGCCCAACATACTCCTAATT
* * * * *
5842707 TTTATTTTT-CTTAAAAACATATCAAACCTTTTGGCGCGAAGAGAGATGACAACCAAGCACCTCA
1 TTTATTTTTACTTAAAAACATATCAAACCCTTTGACACGAAGAGAGATAACAACCAAGCACCCCA
5842771 CCCCAGTTACTCAGCCCAACATA
66 CCCCAGTTACTCAGCCCAACATA
5842794 TTCTTAAAAA
Statistics
Matches: 74, Mismatches: 13, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
96 65 0.88
97 9 0.12
ACGTcount: A:0.33, C:0.27, G:0.13, T:0.27
Consensus pattern (97 bp):
TTTATTTTTACTTAAAAACATATCAAACCCTTTGACACGAAGAGAGATAACAACCAAGCACCCCA
CCCCAGTTACTCAGCCCAACATACTCCTAATT
Found at i:5848256 original size:40 final size:41
Alignment explanation
Indices: 5848201--5848386 Score: 249
Period size: 40 Copynumber: 4.7 Consensus size: 41
5848191 TGATTATTCG
5848201 GACTATATCCGGGCTAAGTCCCGAAGGCAGTTGTGCTA-TT
1 GACTATATCCGGGCTAAGTCCCGAAGGCAGTTGTGCTAGTT
*
5848241 GACTATATCCGGGCTAAGTCCCGAAGGC-GTTTGTGCAAGTT
1 GACTATATCCGGGCTAAGTCCCGAAGGCAG-TTGTGCTAGTT
* **
5848282 G-CTATATCCAGGCTAAGTCCCGAAGGCTTTTGTGCTAG-T
1 GACTATATCCGGGCTAAGTCCCGAAGGCAGTTGTGCTAGTT
* * *
5848321 GACTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTT
1 GACTATATCCGGGCTAAGTCCCGAAGGCAGTTGTGCTAGTT
*
5848362 G-CTATATCC-GGCTAAATCCCGAAGG
1 GACTATATCCGGGCTAAGTCCCGAAGG
5848387 TACTTGGGTT
Statistics
Matches: 131, Mismatches: 10, Indels: 11
0.86 0.07 0.07
Matches are distributed among these distances:
39 17 0.13
40 109 0.83
41 5 0.04
ACGTcount: A:0.23, C:0.23, G:0.27, T:0.26
Consensus pattern (41 bp):
GACTATATCCGGGCTAAGTCCCGAAGGCAGTTGTGCTAGTT
Found at i:5848336 original size:80 final size:79
Alignment explanation
Indices: 5848203--5848386 Score: 287
Period size: 80 Copynumber: 2.3 Consensus size: 79
5848193 ATTATTCGGA
* *
5848203 CTATATCCGGGCTAAGTCCCGAAGGCAGTTGTGCTATTGACTATATCCGGGCTAAGTCCCGAAGG
1 CTATATCC-GGCTAAGTCCCGAAGGCAGTTGTGCTAGTGACTATATCCGGGCTAAGACCCGAAGG
*
5848268 CGTTTGTGCAAGTTG
65 CATTTGTGCAAGTTG
**
5848283 CTATATCCAGGCTAAGTCCCGAAGGCTTTTGTGCTAGTGACTATATCCGGGCTAAGACCCGAAGG
1 CTATATCC-GGCTAAGTCCCGAAGGCAGTTGTGCTAGTGACTATATCCGGGCTAAGACCCGAAGG
*
5848348 CATTTGTGCGAGTTG
65 CATTTGTGCAAGTTG
*
5848363 CTATATCCGGCTAAATCCCGAAGG
1 CTATATCCGGCTAAGTCCCGAAGG
5848387 TACTTGGGTT
Statistics
Matches: 96, Mismatches: 8, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
79 15 0.16
80 81 0.84
ACGTcount: A:0.23, C:0.23, G:0.27, T:0.27
Consensus pattern (79 bp):
CTATATCCGGCTAAGTCCCGAAGGCAGTTGTGCTAGTGACTATATCCGGGCTAAGACCCGAAGGC
ATTTGTGCAAGTTG
Found at i:5856549 original size:40 final size:41
Alignment explanation
Indices: 5856494--5856679 Score: 222
Period size: 40 Copynumber: 4.7 Consensus size: 41
5856484 TGATTATTCG
* * *
5856494 GACTATATCCGGGCTAAGTGCCGAAGGCAGTTGTGCTA-CT
1 GACTATATCCGGGCTAAGTCCCGAAGGCAGTTGTGCGAGTT
5856534 GACTATATCCGGGCTAAGTCCCGAAGGC-GTTTGTGCGAGTT
1 GACTATATCCGGGCTAAGTCCCGAAGGCAG-TTGTGCGAGTT
* *** *
5856575 G-CTATATCCGAGCTAAGTCCCGAAGGGTTTTGTGCTAG-T
1 GACTATATCCGGGCTAAGTCCCGAAGGCAGTTGTGCGAGTT
* *
5856614 GACTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTT
1 GACTATATCCGGGCTAAGTCCCGAAGGCAGTTGTGCGAGTT
*
5856655 G-CTATATCC-GGCTAAATCCCGAAGG
1 GACTATATCCGGGCTAAGTCCCGAAGG
5856680 TACTTGGGTT
Statistics
Matches: 127, Mismatches: 14, Indels: 11
0.84 0.09 0.07
Matches are distributed among these distances:
39 17 0.13
40 106 0.83
41 4 0.03
ACGTcount: A:0.23, C:0.23, G:0.29, T:0.26
Consensus pattern (41 bp):
GACTATATCCGGGCTAAGTCCCGAAGGCAGTTGTGCGAGTT
Found at i:5856629 original size:80 final size:79
Alignment explanation
Indices: 5856496--5856679 Score: 278
Period size: 80 Copynumber: 2.3 Consensus size: 79
5856486 ATTATTCGGA
* *
5856496 CTATATCCGGGCTAAGTGCCGAAGGCAGTTGTGCTACTGACTATATCCGGGCTAAGTCCCGAAGG
1 CTATATCC-GGCTAAGTCCCGAAGGCAGTTGTGCTACTGACTATATCCGGGCTAAGACCCGAAGG
*
5856561 CGTTTGTGCGAGTTG
65 CATTTGTGCGAGTTG
*** *
5856576 CTATATCCGAGCTAAGTCCCGAAGGGTTTTGTGCTAGTGACTATATCCGGGCTAAGACCCGAAGG
1 CTATATCCG-GCTAAGTCCCGAAGGCAGTTGTGCTACTGACTATATCCGGGCTAAGACCCGAAGG
5856641 CATTTGTGCGAGTTG
65 CATTTGTGCGAGTTG
*
5856656 CTATATCCGGCTAAATCCCGAAGG
1 CTATATCCGGCTAAGTCCCGAAGG
5856680 TACTTGGGTT
Statistics
Matches: 95, Mismatches: 8, Indels: 3
0.90 0.08 0.03
Matches are distributed among these distances:
79 15 0.16
80 80 0.84
ACGTcount: A:0.22, C:0.23, G:0.29, T:0.26
Consensus pattern (79 bp):
CTATATCCGGCTAAGTCCCGAAGGCAGTTGTGCTACTGACTATATCCGGGCTAAGACCCGAAGGC
ATTTGTGCGAGTTG
Found at i:5858410 original size:8 final size:7
Alignment explanation
Indices: 5858397--5858454 Score: 50
Period size: 8 Copynumber: 8.3 Consensus size: 7
5858387 ACCCAAACAA
5858397 AATAAAGT
1 AATAAA-T
5858405 AATAAAT
1 AATAAAT
5858412 AAT-AA-
1 AATAAAT
5858417 AATAAAGT
1 AATAAA-T
*
5858425 AATGAAT
1 AATAAAT
*
5858432 AAAAAAT
1 AATAAAT
5858439 AATAAAAT
1 AAT-AAAT
5858447 AA-AAAT
1 AATAAAT
5858453 AA
1 AA
5858455 AGAAAAATAA
Statistics
Matches: 42, Mismatches: 4, Indels: 10
0.75 0.07 0.18
Matches are distributed among these distances:
5 3 0.07
6 10 0.24
7 12 0.29
8 17 0.40
ACGTcount: A:0.72, C:0.00, G:0.05, T:0.22
Consensus pattern (7 bp):
AATAAAT
Found at i:5858420 original size:20 final size:19
Alignment explanation
Indices: 5858395--5858467 Score: 79
Period size: 20 Copynumber: 4.2 Consensus size: 19
5858385 TCACCCAAAC
5858395 AAAATAAAGTAATAAATAA
1 AAAATAAAGTAATAAATAA
*
5858414 TAAAATAAAGTAATGAATAA
1 -AAAATAAAGTAATAAATAA
5858434 AAAAT-AA-T-A-AAAT-A
1 AAAATAAAGTAATAAATAA
5858448 AAAATAAAG-AA-AAATAA
1 AAAATAAAGTAATAAATAA
5858465 AAA
1 AAA
5858468 TTGGGTTGCC
Statistics
Matches: 47, Mismatches: 2, Indels: 11
0.78 0.03 0.18
Matches are distributed among these distances:
14 6 0.13
15 5 0.11
16 6 0.13
17 5 0.11
18 2 0.04
19 5 0.11
20 18 0.38
ACGTcount: A:0.75, C:0.00, G:0.05, T:0.19
Consensus pattern (19 bp):
AAAATAAAGTAATAAATAA
Found at i:5858460 original size:24 final size:24
Alignment explanation
Indices: 5858395--5858464 Score: 79
Period size: 27 Copynumber: 2.7 Consensus size: 24
5858385 TCACCCAAAC
5858395 AAAATAAAGTAATAAATAATAAAATA
1 AAAATAAAG-AA-AAATAATAAAATA
5858421 AAGTAATGAATA-AAAAATAATAAAATA
1 AA--AAT-AA-AGAAAAATAATAAAATA
5858448 AAAATAAAGAAAAATAA
1 AAAATAAAGAAAAATAA
5858465 AAATTGGGTT
Statistics
Matches: 39, Mismatches: 0, Indels: 12
0.76 0.00 0.24
Matches are distributed among these distances:
23 1 0.03
24 10 0.26
25 3 0.08
26 2 0.05
27 15 0.38
28 5 0.13
29 2 0.05
30 1 0.03
ACGTcount: A:0.74, C:0.00, G:0.06, T:0.20
Consensus pattern (24 bp):
AAAATAAAGAAAAATAATAAAATA
Found at i:5859055 original size:93 final size:93
Alignment explanation
Indices: 5858936--5859118 Score: 294
Period size: 93 Copynumber: 2.0 Consensus size: 93
5858926 AGTGCCATAA
*
5858936 ACGTTAAACTTCACGATCTCCCCATCAAACTCCATCATAAGGGTTCCGCTTCGTACGTCAATCTT
1 ACGTTAAACTTCACAATCTCCCCATCAAACTCCATCATAAGGGTTCCGCTTCGTACGTCAATCTT
** *
5859001 AGTGTTTGCAGTACTAAGGAAAGGTCGC
66 AGCATTTGCAGTACTAAGAAAAGGTCGC
* * * *
5859029 ACGTTATACTTCACAATCTCTCCATCAAACTCCATCGTGAGGGTTCCGCTTCGTACGTCAATCTT
1 ACGTTAAACTTCACAATCTCCCCATCAAACTCCATCATAAGGGTTCCGCTTCGTACGTCAATCTT
5859094 AGCATTTGCAGTACTAAGAAAAGGT
66 AGCATTTGCAGTACTAAGAAAAGGT
5859119 TGCCCCAACA
Statistics
Matches: 82, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 82 1.00
ACGTcount: A:0.27, C:0.26, G:0.17, T:0.29
Consensus pattern (93 bp):
ACGTTAAACTTCACAATCTCCCCATCAAACTCCATCATAAGGGTTCCGCTTCGTACGTCAATCTT
AGCATTTGCAGTACTAAGAAAAGGTCGC
Found at i:5862210 original size:10 final size:10
Alignment explanation
Indices: 5862183--5862232 Score: 57
Period size: 10 Copynumber: 5.0 Consensus size: 10
5862173 TTAAATTCTA
5862183 AAAGATAAAT
1 AAAGATAAAT
*
5862193 ACAA-ATAATT
1 A-AAGATAAAT
*
5862203 AAAGATAATT
1 AAAGATAAAT
5862213 AAAGATAAAT
1 AAAGATAAAT
*
5862223 AAAAATAAAT
1 AAAGATAAAT
5862233 CTTAAATTCA
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
9 2 0.06
10 31 0.89
11 2 0.06
ACGTcount: A:0.68, C:0.02, G:0.06, T:0.24
Consensus pattern (10 bp):
AAAGATAAAT
Found at i:5862282 original size:14 final size:13
Alignment explanation
Indices: 5862246--5862283 Score: 58
Period size: 13 Copynumber: 2.8 Consensus size: 13
5862236 AAATTCAAAT
5862246 CTAAATAATTATC
1 CTAAATAATTATC
*
5862259 CTTAATAATTATC
1 CTAAATAATTATC
5862272 CTAACATAATTA
1 CTAA-ATAATTA
5862284 AACATTATAT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
13 15 0.68
14 7 0.32
ACGTcount: A:0.45, C:0.16, G:0.00, T:0.39
Consensus pattern (13 bp):
CTAAATAATTATC
Found at i:5867642 original size:43 final size:43
Alignment explanation
Indices: 5867519--5867664 Score: 168
Period size: 43 Copynumber: 3.4 Consensus size: 43
5867509 CGCAACTATA
* * *
5867519 GCAAACGCCGCTAAAGATCATGACTTTTAGTGGCGCTTTTTCC-
1 GCAAACACCGCTAAAGACCATGACCTTTAGTGGCGC-TTTTCCT
* * * **
5867562 ACAAGCACCACTAAAGACCATGACCTTTAACGGCGCTTTTCCT
1 GCAAACACCGCTAAAGACCATGACCTTTAGTGGCGCTTTTCCT
* * *
5867605 GCAAACACCGTTAAAGACCATGACCTTTAGTGACGCTTTCCCT
1 GCAAACACCGCTAAAGACCATGACCTTTAGTGGCGCTTTTCCT
*
5867648 GCAAACGCCGCTAAAGA
1 GCAAACACCGCTAAAGA
5867665 ATATAACCTT
Statistics
Matches: 84, Mismatches: 18, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
42 6 0.07
43 78 0.93
ACGTcount: A:0.29, C:0.29, G:0.18, T:0.24
Consensus pattern (43 bp):
GCAAACACCGCTAAAGACCATGACCTTTAGTGGCGCTTTTCCT
Found at i:5873716 original size:3 final size:3
Alignment explanation
Indices: 5873690--5873753 Score: 51
Period size: 3 Copynumber: 20.3 Consensus size: 3
5873680 TATATCTTTG
*
5873690 TAT TAT ATAT TAT AAT TA- TAT TAT TAT ATAT TAT T-T ATAT TAT TAT
1 TAT TAT -TAT TAT TAT TAT TAT TAT TAT -TAT TAT TAT -TAT TAT TAT
*
5873736 TATT TAC TAT ATAT TAT T
1 TA-T TAT TAT -TAT TAT T
5873754 TTTCACAAAT
Statistics
Matches: 50, Mismatches: 4, Indels: 14
0.74 0.06 0.21
Matches are distributed among these distances:
2 3 0.06
3 34 0.68
4 13 0.26
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.61
Consensus pattern (3 bp):
TAT
Found at i:5873747 original size:50 final size:49
Alignment explanation
Indices: 5873693--5873883 Score: 152
Period size: 50 Copynumber: 3.9 Consensus size: 49
5873683 ATCTTTGTAT
5873693 TATATATTATA-ATTATATTATTATATATTATTTATATTATTATTATTTAC
1 TATATATTATATATTATA-TATTATATATTATTTATA-TATTATTATTTAC
* * * * *
5873743 TATATATTAT-TTTTCACAAATTA-GTATTATTT-TACATTATTATTTA-
1 TATATATTATATATT-ATATATTATATATTATTTATATATTATTATTTAC
*
5873789 TATAATATTATTATATTGTATTATT-TATA-TATATTATATATTATT-TTTAC
1 TAT-ATATTA-TATATTATA-TATTATATATTAT-TTATATATTATTATTTAC
*
5873839 ATATATACTT-TCATATTATATATTATA-ATTATTT-TAAATTATTAT
1 -TATATA-TTAT-ATATTATATATTATATATTATTTATATATTATTAT
5873884 GTCATTTTTC
Statistics
Matches: 112, Mismatches: 13, Indels: 33
0.71 0.08 0.21
Matches are distributed among these distances:
46 3 0.03
47 17 0.15
48 15 0.13
49 31 0.28
50 39 0.35
51 7 0.06
ACGTcount: A:0.37, C:0.04, G:0.01, T:0.58
Consensus pattern (49 bp):
TATATATTATATATTATATATTATATATTATTTATATATTATTATTTAC
Found at i:5873802 original size:13 final size:13
Alignment explanation
Indices: 5873780--5873833 Score: 51
Period size: 13 Copynumber: 4.3 Consensus size: 13
5873770 TATTTTACAT
5873780 TATTATTTATATAA
1 TATTA-TTATATAA
**
5873794 TATTATTATATTG
1 TATTATTATATAA
5873807 TATTATT-TAT-A
1 TATTATTATATAA
*
5873818 TA-TATTATATAT
1 TATTATTATATAA
5873830 TATT
1 TATT
5873834 TTTACATATA
Statistics
Matches: 33, Mismatches: 4, Indels: 7
0.75 0.09 0.16
Matches are distributed among these distances:
10 4 0.12
11 5 0.15
12 5 0.15
13 14 0.42
14 5 0.15
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.61
Consensus pattern (13 bp):
TATTATTATATAA
Found at i:5873810 original size:27 final size:25
Alignment explanation
Indices: 5873780--5873830 Score: 84
Period size: 27 Copynumber: 2.0 Consensus size: 25
5873770 TATTTTACAT
5873780 TATTATTTATATAATATTATTATATTG
1 TATTATTTATAT-ATATTA-TATATTG
5873807 TATTATTTATATATATTATATATT
1 TATTATTTATATATATTATATATT
5873831 ATTTTTACAT
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
25 6 0.25
26 6 0.25
27 12 0.50
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.61
Consensus pattern (25 bp):
TATTATTTATATATATTATATATTG
Found at i:5877968 original size:14 final size:14
Alignment explanation
Indices: 5877949--5877978 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
5877939 AAGATATTCT
5877949 TTTTCTAAATAAAG
1 TTTTCTAAATAAAG
*
5877963 TTTTCTAAATGAAG
1 TTTTCTAAATAAAG
5877977 TT
1 TT
5877979 GAACCAGAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.37, C:0.07, G:0.10, T:0.47
Consensus pattern (14 bp):
TTTTCTAAATAAAG
Found at i:5878017 original size:14 final size:16
Alignment explanation
Indices: 5877998--5878034 Score: 53
Period size: 15 Copynumber: 2.5 Consensus size: 16
5877988 TTGATATCCT
5877998 TTTGCAT-TCAT-GCA
1 TTTGCATCTCATAGCA
5878012 TTTGCATCTCATAGCA
1 TTTGCATCTCATAGCA
5878028 TTT-CATC
1 TTTGCATC
5878035 GCATCGTTTA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
14 7 0.33
15 8 0.38
16 6 0.29
ACGTcount: A:0.22, C:0.24, G:0.11, T:0.43
Consensus pattern (16 bp):
TTTGCATCTCATAGCA
Found at i:5883810 original size:29 final size:27
Alignment explanation
Indices: 5883792--5883861 Score: 113
Period size: 27 Copynumber: 2.6 Consensus size: 27
5883782 ATATTAAGTC
5883792 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTCAGTGCTATATAATCAACT
*
5883819 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTCAGTGCTATATAATC-AACT
*
5883847 CGCACACTTAGTGCT
1 CGCACACTCAGTGCT
5883862 GTACAATTTA
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 22 0.54
28 19 0.46
ACGTcount: A:0.31, C:0.29, G:0.13, T:0.27
Consensus pattern (27 bp):
CGCACACTCAGTGCTATATAATCAACT
Found at i:5883855 original size:28 final size:28
Alignment explanation
Indices: 5883792--5883889 Score: 135
Period size: 28 Copynumber: 3.5 Consensus size: 28
5883782 ATATTAAGTC
*
5883792 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTATATAATCAAACT
5883819 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
5883847 CGCACACTTAGTGCTGTACAATTTAAACC
1 CGCACACTTAGTGCTATATAA-TCAAACT
5883876 CGCACACTTAGTGC
1 CGCACACTTAGTGC
5883890 CAATCTCATG
Statistics
Matches: 64, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
27 22 0.34
28 23 0.36
29 19 0.30
ACGTcount: A:0.32, C:0.29, G:0.13, T:0.27
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:5890907 original size:149 final size:149
Alignment explanation
Indices: 5890637--5890934 Score: 596
Period size: 149 Copynumber: 2.0 Consensus size: 149
5890627 TGATCCTTGT
5890637 GCATTACGACTTAGATATCTCCCTTTACAGAGCTCCAATACTTATGCCGTTGGTTTCTAATGAAA
1 GCATTACGACTTAGATATCTCCCTTTACAGAGCTCCAATACTTATGCCGTTGGTTTCTAATGAAA
5890702 CTAGACTCAAAAGGGAATCTATACATATAAAGCATGACTTCTAATTGTCTCTTATTAATTTAGGG
66 CTAGACTCAAAAGGGAATCTATACATATAAAGCATGACTTCTAATTGTCTCTTATTAATTTAGGG
5890767 TGAATTTCTAAAGTCGGGA
131 TGAATTTCTAAAGTCGGGA
5890786 GCATTACGACTTAGATATCTCCCTTTACAGAGCTCCAATACTTATGCCGTTGGTTTCTAATGAAA
1 GCATTACGACTTAGATATCTCCCTTTACAGAGCTCCAATACTTATGCCGTTGGTTTCTAATGAAA
5890851 CTAGACTCAAAAGGGAATCTATACATATAAAGCATGACTTCTAATTGTCTCTTATTAATTTAGGG
66 CTAGACTCAAAAGGGAATCTATACATATAAAGCATGACTTCTAATTGTCTCTTATTAATTTAGGG
5890916 TGAATTTCTAAAGTCGGGA
131 TGAATTTCTAAAGTCGGGA
5890935 AAGGGGATCT
Statistics
Matches: 149, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
149 149 1.00
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.34
Consensus pattern (149 bp):
GCATTACGACTTAGATATCTCCCTTTACAGAGCTCCAATACTTATGCCGTTGGTTTCTAATGAAA
CTAGACTCAAAAGGGAATCTATACATATAAAGCATGACTTCTAATTGTCTCTTATTAATTTAGGG
TGAATTTCTAAAGTCGGGA
Found at i:5891998 original size:29 final size:27
Alignment explanation
Indices: 5891980--5892049 Score: 113
Period size: 27 Copynumber: 2.6 Consensus size: 27
5891970 ATATTAAGTC
5891980 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTCAGTGCTATATAATCAACT
*
5892007 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTCAGTGCTATATAATC-AACT
*
5892035 CGCACACTTAGTGCT
1 CGCACACTCAGTGCT
5892050 GTACAATTTA
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 22 0.54
28 19 0.46
ACGTcount: A:0.31, C:0.29, G:0.13, T:0.27
Consensus pattern (27 bp):
CGCACACTCAGTGCTATATAATCAACT
Found at i:5892043 original size:28 final size:28
Alignment explanation
Indices: 5891980--5892077 Score: 135
Period size: 28 Copynumber: 3.5 Consensus size: 28
5891970 ATATTAAGTC
*
5891980 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTATATAATCAAACT
5892007 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
5892035 CGCACACTTAGTGCTGTACAATTTAAACC
1 CGCACACTTAGTGCTATATAA-TCAAACT
5892064 CGCACACTTAGTGC
1 CGCACACTTAGTGC
5892078 CAATCTCATG
Statistics
Matches: 64, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
27 22 0.34
28 23 0.36
29 19 0.30
ACGTcount: A:0.32, C:0.29, G:0.13, T:0.27
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:5898002 original size:202 final size:204
Alignment explanation
Indices: 5897487--5898036 Score: 797
Period size: 206 Copynumber: 2.7 Consensus size: 204
5897477 AGATCTGGCG
* *
5897487 GAAGCAAGATCCAAGATGGTTTGGCATCCTTGTACTTACAAGGAACAAACCGAAGACATAGCTGA
1 GAAGCAAGATCCAAGATGGTTTGGCATCCTTGTGCTTACAAGGAACAAATCGAAGACATAGCTGA
* * * * *
5897552 TTCGGCTTTCACGTGTTTACGTTGAAGCAAATCTAAGATAATTTGGCATCTCTGTATTGTCAAAG
66 TTTGGCTTTCACGTGTTTACGATAAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGAG
** **
5897617 AACAAATCGAAGTTTGGCGTCTCCATATTCGGTGGAAAGCAGACACATTGCAGATCTGGCCTTCA
131 AACAAATCGAAGTTTGGCGTCTCCATATTCGGACGAAAGCAGACACATT---GATCTCACCTTCA
* *
5897682 TATGTTTATACT
193 GATGTTTACACT
* *
5897694 GAAGC-AGATCCAAGATGATTTGGCATCCTTGTGTTTACAAGGAACAAATCGAA-ATCATAGCTG
1 GAAGCAAGATCCAAGATGGTTTGGCATCCTTGTGCTTACAAGGAACAAATCGAAGA-CATAGCTG
* * *
5897757 ATTTGGCTTTCACGTGCTTATGATAAAGCAAATCTAAGATGATTTGGCATCTTTGTATTGTCAGA
65 ATTTGGCTTTCACGTGTTTACGATAAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGA
*
5897822 GAACAAATTGAAGTTTGGCGTCTCCATATTC-GACGAAAGGCAGACACA-T-ATCTCACCTTCAG
130 GAACAAATCGAAGTTTGGCGTCTCCATATTCGGACGAAA-GCAGACACATTGATCTCACCTTCAG
5897884 ATGATTT-CACT
194 ATG-TTTACACT
*
5897895 GAAGCAAGATCCAAGATGGTTTGGTATCCTTGTGCTTACAAGGAACAAATCGAAGACATAGCTGA
1 GAAGCAAGATCCAAGATGGTTTGGCATCCTTGTGCTTACAAGGAACAAATCGAAGACATAGCTGA
* * *
5897960 TTTGGTTTTCGCGTGTTTACGCTAAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGAG
66 TTTGGCTTTCACGTGTTTACGATAAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGAG
5898025 AACAAATCGAAG
131 AACAAATCGAAG
5898037 AAGCAGATTT
Statistics
Matches: 309, Mismatches: 29, Indels: 15
0.88 0.08 0.04
Matches are distributed among these distances:
201 21 0.07
202 127 0.41
203 1 0.00
205 7 0.02
206 148 0.48
207 5 0.02
ACGTcount: A:0.31, C:0.18, G:0.21, T:0.29
Consensus pattern (204 bp):
GAAGCAAGATCCAAGATGGTTTGGCATCCTTGTGCTTACAAGGAACAAATCGAAGACATAGCTGA
TTTGGCTTTCACGTGTTTACGATAAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGAG
AACAAATCGAAGTTTGGCGTCTCCATATTCGGACGAAAGCAGACACATTGATCTCACCTTCAGAT
GTTTACACT
Found at i:5900033 original size:7 final size:7
Alignment explanation
Indices: 5900020--5900084 Score: 112
Period size: 7 Copynumber: 9.0 Consensus size: 7
5900010 TTAAATATTA
5900020 AATTTTT
1 AATTTTT
5900027 AAGTTTTT
1 AA-TTTTT
5900035 AATTTTT
1 AATTTTT
5900042 AATTTTT
1 AATTTTT
5900049 AATTTTT
1 AATTTTT
5900056 AATTTTT
1 AATTTTT
5900063 AATTTTT
1 AATTTTT
5900070 AATTTTT
1 AATTTTT
5900077 AAATTTTT
1 -AATTTTT
5900085 TTTTGAAGAT
Statistics
Matches: 56, Mismatches: 0, Indels: 3
0.95 0.00 0.05
Matches are distributed among these distances:
7 42 0.75
8 14 0.25
ACGTcount: A:0.29, C:0.00, G:0.02, T:0.69
Consensus pattern (7 bp):
AATTTTT
Found at i:5900706 original size:15 final size:15
Alignment explanation
Indices: 5900673--5900715 Score: 54
Period size: 15 Copynumber: 3.0 Consensus size: 15
5900663 TTATCTCTTA
*
5900673 CATAA-CCATAAA-T
1 CATAATCCATAAACC
*
5900686 CATAATCCCTAAACC
1 CATAATCCATAAACC
5900701 CATAATCCATAAACC
1 CATAATCCATAAACC
5900716 TTAAAATAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
13 5 0.20
14 6 0.24
15 14 0.56
ACGTcount: A:0.47, C:0.33, G:0.00, T:0.21
Consensus pattern (15 bp):
CATAATCCATAAACC
Found at i:5900720 original size:22 final size:22
Alignment explanation
Indices: 5900678--5900764 Score: 52
Period size: 22 Copynumber: 4.0 Consensus size: 22
5900668 TCTTACATAA
*
5900678 CCATAAATCATAATCCCTAAAC
1 CCATAAATCATAAACCCTAAAC
* *
5900700 CCAT-AATCCATAAACCTTAAAA
1 CCATAAAT-CATAAACCCTAAAC
** * * **
5900722 TAATAACTCATACACTTTAAAC
1 CCATAAATCATAAACCCTAAAC
* *
5900744 CC-TAAACCATATACCCTAAAC
1 CCATAAATCATAAACCCTAAAC
5900765 TATAAACCCT
Statistics
Matches: 47, Mismatches: 16, Indels: 5
0.69 0.24 0.07
Matches are distributed among these distances:
21 17 0.36
22 28 0.60
23 2 0.04
ACGTcount: A:0.46, C:0.30, G:0.00, T:0.24
Consensus pattern (22 bp):
CCATAAATCATAAACCCTAAAC
Found at i:5900761 original size:14 final size:14
Alignment explanation
Indices: 5900739--5900783 Score: 63
Period size: 14 Copynumber: 3.2 Consensus size: 14
5900729 TCATACACTT
5900739 TAAACCCTAAACCA
1 TAAACCCTAAACCA
* *
5900753 TATACCCTAAACTA
1 TAAACCCTAAACCA
*
5900767 TAAACCCTAAACTA
1 TAAACCCTAAACCA
5900781 TAA
1 TAA
5900784 TGATAATCAA
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 28 1.00
ACGTcount: A:0.49, C:0.29, G:0.00, T:0.22
Consensus pattern (14 bp):
TAAACCCTAAACCA
Found at i:5900901 original size:7 final size:7
Alignment explanation
Indices: 5900877--5901056 Score: 78
Period size: 7 Copynumber: 24.7 Consensus size: 7
5900867 ACTAACTAAT
5900877 CTAAACC
1 CTAAACC
*
5900884 TTAAACTC
1 CTAAAC-C
*
5900892 CTAACCC
1 CTAAACC
5900899 CTAAACC
1 CTAAACC
5900906 CTAAACC
1 CTAAACC
5900913 CTAAACC
1 CTAAACC
* *
5900920 ATAAATC
1 CTAAACC
*
5900927 CTAAAAC
1 CTAAACC
*
5900934 ATAAACC
1 CTAAACC
* *
5900941 ATGAACC
1 CTAAACC
*
5900948 ATAAACCC
1 CTAAA-CC
*
5900956 CT-CACC
1 CTAAACC
*
5900962 CTTAACC
1 CTAAACC
*
5900969 CTTAACCC
1 C-TAAACC
5900977 CT-AACAC
1 CTAAAC-C
5900984 CTAAACC
1 CTAAACC
*
5900991 TTAAACC
1 CTAAACC
*
5900998 C-CAACC
1 CTAAACC
5901004 CTTAAATCAC
1 C-TAAA-C-C
5901014 CTTTAAACC
1 C--TAAACC
* *
5901023 ATAATCC
1 CTAAACC
5901030 CTAAACC
1 CTAAACC
*
5901037 CATAATCC
1 C-TAAACC
*
5901045 ATAAACC
1 CTAAACC
*
5901052 TTAAA
1 CTAAA
5901057 ATAGTAACTC
Statistics
Matches: 131, Mismatches: 30, Indels: 24
0.71 0.16 0.13
Matches are distributed among these distances:
6 11 0.08
7 87 0.66
8 23 0.18
9 2 0.02
10 3 0.02
11 5 0.04
ACGTcount: A:0.42, C:0.37, G:0.01, T:0.21
Consensus pattern (7 bp):
CTAAACC
Found at i:5901009 original size:21 final size:22
Alignment explanation
Indices: 5900878--5901009 Score: 87
Period size: 21 Copynumber: 6.2 Consensus size: 22
5900868 CTAACTAATC
* *
5900878 TAAACCTTAAACTCCTAACCCC
1 TAAACCTTAAACCCCTAACCCT
* * *
5900900 TAAACCCTAAA-CCCTAAACCA
1 TAAACCTTAAACCCCTAACCCT
* * * *
5900921 TAAATCC-TAAA-ACATAAACCA
1 TAAA-CCTTAAACCCCTAACCCT
* * *
5900942 TGAACCATAAACCCCTCACCCT
1 TAAACCTTAAACCCCTAACCCT
*
5900964 TAACCCTT-AACCCCTAACACC-
1 TAAACCTTAAACCCCTAAC-CCT
5900985 TAAACCTTAAACCCC-AACCCT
1 TAAACCTTAAACCCCTAACCCT
5901006 TAAA
1 TAAA
5901010 TCACCTTTAA
Statistics
Matches: 87, Mismatches: 17, Indels: 13
0.74 0.15 0.11
Matches are distributed among these distances:
20 4 0.05
21 53 0.61
22 30 0.34
ACGTcount: A:0.42, C:0.39, G:0.01, T:0.19
Consensus pattern (22 bp):
TAAACCTTAAACCCCTAACCCT
Found at i:5901453 original size:41 final size:39
Alignment explanation
Indices: 5901368--5901479 Score: 127
Period size: 39 Copynumber: 2.8 Consensus size: 39
5901358 AGATCAAGCA
* *
5901368 TTAGCGGCGTTTTTAAAAGGCGCCGCTAAAGGTGTAATT
1 TTAGCGGCGTTTTTAAAAAGCGCCGCTAAAGCTGTAATT
* * *
5901407 ATAGCGGCGTTTCTTAAAAAAGCGTCGCTAATGCT-TAATCT
1 TTAGCGGCGTTT-TT-AAAAAGCGCCGCTAAAGCTGTAAT-T
* *
5901448 TTAGCGTCGTTTTTGAAAAGCGCCGCTAAAGC
1 TTAGCGGCGTTTTTAAAAAGCGCCGCTAAAGC
5901480 CACTAAAAGC
Statistics
Matches: 60, Mismatches: 10, Indels: 6
0.79 0.13 0.08
Matches are distributed among these distances:
39 26 0.43
40 8 0.13
41 26 0.43
ACGTcount: A:0.27, C:0.19, G:0.24, T:0.30
Consensus pattern (39 bp):
TTAGCGGCGTTTTTAAAAAGCGCCGCTAAAGCTGTAATT
Found at i:5901608 original size:180 final size:182
Alignment explanation
Indices: 5901265--5901666 Score: 490
Period size: 180 Copynumber: 2.2 Consensus size: 182
5901255 CATTTCTTGT
*
5901265 GGCGTTTTTCAAAAAGCGCCGCTAAAGCCACTAAAAGCTTAATACAGCGTTTTGCAAAATTCTTT
1 GGCGTTTTT-AAAAAGCGCCGCTAAAGCCACTAAAAGC-T-AT--A-CGTTTTGCAAAATACTTT
* *
5901330 TGCAGCGTTTTTTGAAAAACGCCACCAAAGATCAAGCATTAGCGGCGTTTTTAAAAGGCGCCGCT
60 TGCAGCGTTCTTTCAAAAACGCCACCAAAGATCAAGCATTAGCGGCGTTTTTAAAAGGCGCCGCT
* * ** *
5901395 AAAGGTGTAATTATAGCGGCGTTTCTTAAAAAAGCG-TCGCTAATGCTTAATCTTTAGC
125 AAAGGTATAATTATAGCGGCGTTTCTCAAAAAAGCGCT-GCTAATAATCAATCTTTAGC
* * * *
5901453 GTCGTTTTTGAAAAGCGCCGCTAAAGCCACTAAAAGC-GT-CGTTTTGCAAAATACTTTTGCGGC
1 GGCGTTTTTAAAAAGCGCCGCTAAAGCCACTAAAAGCTATACGTTTTGCAAAATACTTTTGCAGC
* ** *
5901516 GTTCTTTCAAAAATGCTGCTAAAGATCAAGCATTAGCGGCGTTTTCTAAAAGGCGCCGCTAAAGG
66 GTTCTTTCAAAAACGCCACCAAAGATCAAGCATTAGCGGCGTTTT-TAAAAGGCGCCGCTAAAGG
* * *
5901581 TATACA-TATAGCTGCGTTT-TCAAAAAAGCGCTGCTAATAATCGATCTTTAGT
130 TATA-ATTATAGCGGCGTTTCTCAAAAAAGCGCTGCTAATAATCAATCTTTAGC
** *
5901633 GGCGTCATTAAAAAGCGCCACTAAAGCCACTAAA
1 GGCGTTTTTAAAAAGCGCCGCTAAAGCCACTAAA
5901667 GGCTTGTGGC
Statistics
Matches: 187, Mismatches: 24, Indels: 14
0.83 0.11 0.06
Matches are distributed among these distances:
180 115 0.61
181 35 0.19
182 1 0.01
184 1 0.01
187 27 0.14
188 8 0.04
ACGTcount: A:0.31, C:0.21, G:0.20, T:0.28
Consensus pattern (182 bp):
GGCGTTTTTAAAAAGCGCCGCTAAAGCCACTAAAAGCTATACGTTTTGCAAAATACTTTTGCAGC
GTTCTTTCAAAAACGCCACCAAAGATCAAGCATTAGCGGCGTTTTTAAAAGGCGCCGCTAAAGGT
ATAATTATAGCGGCGTTTCTCAAAAAAGCGCTGCTAATAATCAATCTTTAGC
Found at i:5903966 original size:15 final size:15
Alignment explanation
Indices: 5903946--5903976 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
5903936 GTCATGTAAG
5903946 TGAAAGGTCAAGAGT
1 TGAAAGGTCAAGAGT
5903961 TGAAAGGTCAAGAGT
1 TGAAAGGTCAAGAGT
5903976 T
1 T
5903977 ATATTGTTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.39, C:0.06, G:0.32, T:0.23
Consensus pattern (15 bp):
TGAAAGGTCAAGAGT
Found at i:5904166 original size:17 final size:17
Alignment explanation
Indices: 5904133--5904171 Score: 53
Period size: 18 Copynumber: 2.3 Consensus size: 17
5904123 TAAGCTTTTG
5904133 ATTTTATATGAGAGAAC
1 ATTTTATATGAGAGAAC
*
5904150 AATTTTATAT-TGAGAAC
1 -ATTTTATATGAGAGAAC
5904167 ATTTT
1 ATTTT
5904172 CCACAATTTG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 5 0.25
17 6 0.30
18 9 0.45
ACGTcount: A:0.38, C:0.05, G:0.13, T:0.44
Consensus pattern (17 bp):
ATTTTATATGAGAGAAC
Found at i:5904937 original size:15 final size:15
Alignment explanation
Indices: 5904913--5904942 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
5904903 TGGAGATCGA
*
5904913 GGAAATGGTCGTGGT
1 GGAAAAGGTCGTGGT
5904928 GGAAAAGGTCGTGGT
1 GGAAAAGGTCGTGGT
5904943 CAAGAAGGGA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.23, C:0.07, G:0.47, T:0.23
Consensus pattern (15 bp):
GGAAAAGGTCGTGGT
Found at i:5908322 original size:15 final size:15
Alignment explanation
Indices: 5908302--5908332 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
5908292 GTCATGTAAG
5908302 TGAAAGGTCAAGAGT
1 TGAAAGGTCAAGAGT
5908317 TGAAAGGTCAAGAGT
1 TGAAAGGTCAAGAGT
5908332 T
1 T
5908333 ATATTGTTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.39, C:0.06, G:0.32, T:0.23
Consensus pattern (15 bp):
TGAAAGGTCAAGAGT
Found at i:5908522 original size:17 final size:17
Alignment explanation
Indices: 5908489--5908527 Score: 53
Period size: 18 Copynumber: 2.3 Consensus size: 17
5908479 TAAGCTTTTG
5908489 ATTTTATATGAGAGAAC
1 ATTTTATATGAGAGAAC
*
5908506 AATTTTATAT-TGAGAAC
1 -ATTTTATATGAGAGAAC
5908523 ATTTT
1 ATTTT
5908528 CCACAAAATA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 5 0.25
17 6 0.30
18 9 0.45
ACGTcount: A:0.38, C:0.05, G:0.13, T:0.44
Consensus pattern (17 bp):
ATTTTATATGAGAGAAC
Found at i:5911649 original size:5 final size:5
Alignment explanation
Indices: 5911639--5911666 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
5911629 TTGTGTGTTC
5911639 TTTAT TTTAT TTTAT TTTAT TTTAT TTT
1 TTTAT TTTAT TTTAT TTTAT TTTAT TTT
5911667 TTCACAAATT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (5 bp):
TTTAT
Found at i:5914216 original size:26 final size:26
Alignment explanation
Indices: 5914186--5914237 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 26
5914176 GCAAGAGGAG
** *
5914186 ATGGAATCACTTTGCAAAAATAAAAA
1 ATGGAATCACTTCACAAAAACAAAAA
*
5914212 ATGGAATTACTTCACAAAAACAAAAA
1 ATGGAATCACTTCACAAAAACAAAAA
5914238 CTGCATTTTT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.56, C:0.13, G:0.10, T:0.21
Consensus pattern (26 bp):
ATGGAATCACTTCACAAAAACAAAAA
Found at i:5916070 original size:49 final size:48
Alignment explanation
Indices: 5915994--5916101 Score: 135
Period size: 49 Copynumber: 2.2 Consensus size: 48
5915984 GAACTTGTAC
* * * * *
5915994 ATTCAACCATCCGAATGACCCAACAATGATGACTTTTACTGTTTGCAT
1 ATTCTACCATCCCAATGACCCAACAATGATGACTTTGAATATTTGCAT
* *
5916042 ATTCTACCATCCCAAGTGGCCCAACAATGATGGCTTTGAATATTTGCAT
1 ATTCTACCATCCCAA-TGACCCAACAATGATGACTTTGAATATTTGCAT
*
5916091 ATTCTATCATC
1 ATTCTACCATC
5916102 TTGAGCGGCC
Statistics
Matches: 51, Mismatches: 8, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
48 13 0.25
49 38 0.75
ACGTcount: A:0.30, C:0.25, G:0.13, T:0.32
Consensus pattern (48 bp):
ATTCTACCATCCCAATGACCCAACAATGATGACTTTGAATATTTGCAT
Found at i:5916117 original size:49 final size:49
Alignment explanation
Indices: 5916012--5916131 Score: 141
Period size: 49 Copynumber: 2.4 Consensus size: 49
5916002 ATCCGAATGA
* * * * *
5916012 CCCAACAATGATGACTTTTACTGTTTGCATATTCTACCATCCCAAGTGG
1 CCCAACAATGATGGCTTTGAATATTTGCATATTCTACCATCCCAAGCGG
* ***
5916061 CCCAACAATGATGGCTTTGAATATTTGCATATTCTATCATCTTGAGCGG
1 CCCAACAATGATGGCTTTGAATATTTGCATATTCTACCATCCCAAGCGG
* *
5916110 CCTAACAATGATGGTTTTGAAT
1 CCCAACAATGATGGCTTTGAAT
5916132 CATTATTTCG
Statistics
Matches: 60, Mismatches: 11, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
49 60 1.00
ACGTcount: A:0.28, C:0.22, G:0.17, T:0.34
Consensus pattern (49 bp):
CCCAACAATGATGGCTTTGAATATTTGCATATTCTACCATCCCAAGCGG
Found at i:5916998 original size:20 final size:20
Alignment explanation
Indices: 5916955--5916994 Score: 64
Period size: 19 Copynumber: 2.0 Consensus size: 20
5916945 GGTTAACATT
*
5916955 AGTTAATTATTAATTAGTTA
1 AGTTAATTATTAATTAATTA
5916975 AGTTAATTA-TAATTAATTA
1 AGTTAATTATTAATTAATTA
5916994 A
1 A
5916995 AGTTTAATCT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 10 0.53
20 9 0.47
ACGTcount: A:0.45, C:0.00, G:0.07, T:0.47
Consensus pattern (20 bp):
AGTTAATTATTAATTAATTA
Found at i:5926023 original size:38 final size:38
Alignment explanation
Indices: 5925972--5926054 Score: 139
Period size: 38 Copynumber: 2.2 Consensus size: 38
5925962 AACCCTAATC
* * *
5925972 CCACCTATTCCACCACCTTTGTTGGTCACCCACCTTGG
1 CCACCTACTCCACCACCCTTGTTGGCCACCCACCTTGG
5926010 CCACCTACTCCACCACCCTTGTTGGCCACCCACCTTGG
1 CCACCTACTCCACCACCCTTGTTGGCCACCCACCTTGG
5926048 CCACCTA
1 CCACCTA
5926055 AACCACCCCA
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
38 42 1.00
ACGTcount: A:0.17, C:0.47, G:0.12, T:0.24
Consensus pattern (38 bp):
CCACCTACTCCACCACCCTTGTTGGCCACCCACCTTGG
Found at i:5926479 original size:3 final size:3
Alignment explanation
Indices: 5926468--5926547 Score: 53
Period size: 3 Copynumber: 26.3 Consensus size: 3
5926458 TTGTATTTTT
* *
5926468 TTA TT- TTA TTA TTT TTA CTA TTA TT- TATA TTA TTA TTA TTA TT-
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA TTA TTA TTA TTA
5926511 TCTCA TGTA TATA TTA TTA TT- TATA TTA TTA -TA TTA T
1 T-T-A T-TA T-TA TTA TTA TTA T-TA TTA TTA TTA TTA T
5926548 ATATGCCCTC
Statistics
Matches: 62, Mismatches: 6, Indels: 18
0.72 0.07 0.21
Matches are distributed among these distances:
2 7 0.11
3 46 0.74
4 7 0.11
5 2 0.03
ACGTcount: A:0.30, C:0.04, G:0.01, T:0.65
Consensus pattern (3 bp):
TTA
Found at i:5926525 original size:21 final size:18
Alignment explanation
Indices: 5926472--5926547 Score: 82
Period size: 18 Copynumber: 4.1 Consensus size: 18
5926462 ATTTTTTTAT
* *
5926472 TTTATTATTTTTACTATTA
1 TTTA-TATTATTATTATTA
5926491 TTTATATTATTATTATTA
1 TTTATATTATTATTATTA
*
5926509 TTTCTCATGTATATATTATTA
1 TTTAT-AT-TAT-TATTATTA
5926530 TTTATATTATTA-TATTA
1 TTTATATTATTATTATTA
5926547 T
1 T
5926548 ATATGCCCTC
Statistics
Matches: 50, Mismatches: 4, Indels: 8
0.81 0.06 0.13
Matches are distributed among these distances:
17 6 0.12
18 18 0.36
19 9 0.18
20 5 0.10
21 12 0.24
ACGTcount: A:0.30, C:0.04, G:0.01, T:0.64
Consensus pattern (18 bp):
TTTATATTATTATTATTA
Found at i:5926548 original size:27 final size:26
Alignment explanation
Indices: 5926473--5926551 Score: 81
Period size: 27 Copynumber: 3.0 Consensus size: 26
5926463 TTTTTTTATT
* *
5926473 TTATTATTTTTACTATTATTTATATTA
1 TTATTATTTATATTATTATTTATA-TA
* * *
5926500 TTATTA-TTAT-TTCTCATGTATATA
1 TTATTATTTATATTATTATTTATATA
5926524 TTATTATTTATATTATTATATTATATA
1 TTATTATTTATATTATTAT-TTATATA
5926551 T
1 T
5926552 GCCCTCTCCA
Statistics
Matches: 41, Mismatches: 8, Indels: 6
0.75 0.15 0.11
Matches are distributed among these distances:
24 8 0.20
25 12 0.29
26 8 0.20
27 13 0.32
ACGTcount: A:0.32, C:0.04, G:0.01, T:0.63
Consensus pattern (26 bp):
TTATTATTTATATTATTATTTATATA
Found at i:5928588 original size:40 final size:40
Alignment explanation
Indices: 5928526--5928783 Score: 369
Period size: 40 Copynumber: 6.5 Consensus size: 40
5928516 AAGCCAAGTA
* * * *
5928526 CCTTCGGGATTTA-ACCGGATATAGCT-ACTCGCTCGAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
*
5928565 CCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
5928605 CCTTCGGGACTTAGCCCGGATATAGCAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
5928645 CCTTCAGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
5928685 CCTTCGGGACTTAGCCCGGATATAGTAACTCACACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * * *
5928725 CCTTCGGGACTTAGTCCGGA-ACTAGTCACTAGCGCAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
5928765 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
5928784 TTATCATCCA
Statistics
Matches: 199, Mismatches: 17, Indels: 5
0.90 0.08 0.02
Matches are distributed among these distances:
39 13 0.07
40 186 0.93
ACGTcount: A:0.26, C:0.28, G:0.23, T:0.22
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:5944847 original size:68 final size:68
Alignment explanation
Indices: 5944758--5944959 Score: 350
Period size: 68 Copynumber: 3.0 Consensus size: 68
5944748 CAATCAAATA
*
5944758 TCTTCTCCCTGAAATGGCGTTGGAGCGGCTAAAAGCCACAGTAGATCTCCTTGAAGTTTCAGTGG
1 TCTTCTCCCTGAAATGGCGTTGGAGCGGCTAAAAGCCACAGCAGATCTCCTTGAAGTTTCAGTGG
5944823 ATC
66 ATC
* *
5944826 TCTTTTCCCTGAAATGGCGTTGGAGTGGCTAAAAGCCACAGCAGATCTCCTTGAAGTTTCAGTGG
1 TCTTCTCCCTGAAATGGCGTTGGAGCGGCTAAAAGCCACAGCAGATCTCCTTGAAGTTTCAGTGG
5944891 ATC
66 ATC
* * *
5944894 TCTTCTCCCTGATATGGCGTTGGAGCGGCTAAAAGCCACAACAGATCTCCTTGAAGTTTCAATGG
1 TCTTCTCCCTGAAATGGCGTTGGAGCGGCTAAAAGCCACAGCAGATCTCCTTGAAGTTTCAGTGG
5944959 A
66 A
5944960 ATTGATTGAA
Statistics
Matches: 126, Mismatches: 8, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
68 126 1.00
ACGTcount: A:0.24, C:0.23, G:0.24, T:0.28
Consensus pattern (68 bp):
TCTTCTCCCTGAAATGGCGTTGGAGCGGCTAAAAGCCACAGCAGATCTCCTTGAAGTTTCAGTGG
ATC
Found at i:5945827 original size:12 final size:12
Alignment explanation
Indices: 5945810--5945878 Score: 56
Period size: 12 Copynumber: 5.9 Consensus size: 12
5945800 TTTTTTATTT
*
5945810 TATTATTTTTAC
1 TATTATTTATAC
*
5945822 TATTATTTATAT
1 TATTATTTATAC
5945834 TATTATTTAT-C
1 TATTATTTATAC
*
5945845 -ATGTA--TATAT
1 TAT-TATTTATAC
*
5945855 TATTATTTATAT
1 TATTATTTATAC
5945867 TATTATATTATA
1 TATTAT-TTATA
5945879 TATGCCCTCT
Statistics
Matches: 47, Mismatches: 4, Indels: 11
0.76 0.06 0.18
Matches are distributed among these distances:
9 3 0.06
10 4 0.09
11 4 0.09
12 31 0.66
13 5 0.11
ACGTcount: A:0.33, C:0.03, G:0.01, T:0.62
Consensus pattern (12 bp):
TATTATTTATAC
Found at i:5948771 original size:5 final size:5
Alignment explanation
Indices: 5948761--5948788 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
5948751 TGGTGTGTTC
5948761 TTTAT TTTAT TTTAT TTTAT TTTAT TTT
1 TTTAT TTTAT TTTAT TTTAT TTTAT TTT
5948789 TTCACAAATT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (5 bp):
TTTAT
Found at i:5951343 original size:26 final size:26
Alignment explanation
Indices: 5951307--5951358 Score: 95
Period size: 26 Copynumber: 2.0 Consensus size: 26
5951297 GCAAGAGGAG
*
5951307 ATGGAATCACTTTACAAAAACAAAAA
1 ATGGAATCACTTCACAAAAACAAAAA
5951333 ATGGAATCACTTCACAAAAACAAAAA
1 ATGGAATCACTTCACAAAAACAAAAA
5951359 CTACATTTTT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.58, C:0.17, G:0.08, T:0.17
Consensus pattern (26 bp):
ATGGAATCACTTCACAAAAACAAAAA
Found at i:5953060 original size:48 final size:48
Alignment explanation
Indices: 5952997--5953110 Score: 122
Period size: 49 Copynumber: 2.4 Consensus size: 48
5952987 CATGTAGAAC
* * * * * *
5952997 TTGCACATTCAACCATCCG-GATGACCCAACAATGATGATTTTTACTGT
1 TTGCATATTCTACCATCCGAGATG-CCCAACAATGATGACTTTGAATAT
* *
5953045 TTGCATATTCTACCATCCCGAGTTGCCCAACAATGATGGCTTTGAATAT
1 TTGCATATTCTACCAT-CCGAGATGCCCAACAATGATGACTTTGAATAT
*
5953094 TTGCATATTCTATCATC
1 TTGCATATTCTACCATC
5953111 TTAAGCGGCC
Statistics
Matches: 55, Mismatches: 9, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
48 15 0.27
49 37 0.67
50 3 0.05
ACGTcount: A:0.27, C:0.25, G:0.14, T:0.34
Consensus pattern (48 bp):
TTGCATATTCTACCATCCGAGATGCCCAACAATGATGACTTTGAATAT
Found at i:5954005 original size:20 final size:20
Alignment explanation
Indices: 5953962--5954001 Score: 64
Period size: 19 Copynumber: 2.0 Consensus size: 20
5953952 GGTTAACATT
*
5953962 AGTTAATTATTAATTAGTTA
1 AGTTAATTATTAATTAATTA
5953982 AGTTAATTA-TAATTAATTA
1 AGTTAATTATTAATTAATTA
5954001 A
1 A
5954002 AGTTTAATCT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 10 0.53
20 9 0.47
ACGTcount: A:0.45, C:0.00, G:0.07, T:0.47
Consensus pattern (20 bp):
AGTTAATTATTAATTAATTA
Found at i:5959674 original size:45 final size:45
Alignment explanation
Indices: 5959610--5959695 Score: 172
Period size: 45 Copynumber: 1.9 Consensus size: 45
5959600 ATCTTAGCCC
5959610 AATTTCAGATTCTTTTAATCGAATCACATGACGTACCCGATGCCT
1 AATTTCAGATTCTTTTAATCGAATCACATGACGTACCCGATGCCT
5959655 AATTTCAGATTCTTTTAATCGAATCACATGACGTACCCGAT
1 AATTTCAGATTCTTTTAATCGAATCACATGACGTACCCGAT
5959696 ATCACGTCAG
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
45 41 1.00
ACGTcount: A:0.30, C:0.23, G:0.13, T:0.34
Consensus pattern (45 bp):
AATTTCAGATTCTTTTAATCGAATCACATGACGTACCCGATGCCT
Found at i:5961997 original size:19 final size:19
Alignment explanation
Indices: 5961969--5962016 Score: 73
Period size: 19 Copynumber: 2.6 Consensus size: 19
5961959 GTATATATTT
5961969 TAAA-TTTATTTAGG-TAGA
1 TAAATTTTATTT-GGATAGA
5961987 TAAATTTTATTTGGATAGA
1 TAAATTTTATTTGGATAGA
5962006 TAAATTTTATT
1 TAAATTTTATT
5962017 CATATTGTAG
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
18 6 0.21
19 22 0.79
ACGTcount: A:0.38, C:0.00, G:0.12, T:0.50
Consensus pattern (19 bp):
TAAATTTTATTTGGATAGA
Found at i:5962085 original size:43 final size:44
Alignment explanation
Indices: 5962030--5962123 Score: 147
Period size: 43 Copynumber: 2.2 Consensus size: 44
5962020 ATTGTAGAAA
*
5962030 TATTTT-TATTTTATCTTTTAGTAGTTTACTAGAATAAGGGAAC
1 TATTTTCTATTTTATCTTTTAATAGTTTACTAGAATAAGGGAAC
* *
5962073 TATTTTCT-TTTTATGTTTTAATAGTTTATTAGAATAAGGGAAC
1 TATTTTCTATTTTATCTTTTAATAGTTTACTAGAATAAGGGAAC
5962116 TATTTTCT
1 TATTTTCT
5962124 CAATTAGGAT
Statistics
Matches: 47, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
43 46 0.98
44 1 0.02
ACGTcount: A:0.29, C:0.06, G:0.13, T:0.52
Consensus pattern (44 bp):
TATTTTCTATTTTATCTTTTAATAGTTTACTAGAATAAGGGAAC
Found at i:5964666 original size:19 final size:20
Alignment explanation
Indices: 5964642--5964679 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
5964632 GGTACCACCA
5964642 AAACAT-ATATCA-CATCTTT
1 AAACATCAT-TCATCATCTTT
5964661 AAACATCATTCATCATCTT
1 AAACATCATTCATCATCTT
5964680 ACCACCTTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.39, C:0.24, G:0.00, T:0.37
Consensus pattern (20 bp):
AAACATCATTCATCATCTTT
Found at i:5965068 original size:93 final size:93
Alignment explanation
Indices: 5964909--5965079 Score: 279
Period size: 93 Copynumber: 1.8 Consensus size: 93
5964899 GCCCCTAAGT
*
5964909 GAACTCAGACTCAACTCAACGAGCCCGGGCATTCACATCCATAAATGAACTCGGACTCAACTCAA
1 GAACTCAGACTCAACTCAACGAGCCCGGACATTCACATCCATAAATGAACTCGGACTCAACTCAA
5964974 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
* ** ** *
5965002 GAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCAGACTCAACTCAACGAGCCCGGACATTCACATCCATAAATGAACTCGGACTCAACTCAA
5965067 CGAGTTCGGATGC
66 CGAGTTCGGATGC
5965080 TCAACCATCC
Statistics
Matches: 71, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 71 1.00
ACGTcount: A:0.30, C:0.29, G:0.19, T:0.21
Consensus pattern (93 bp):
GAACTCAGACTCAACTCAACGAGCCCGGACATTCACATCCATAAATGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:5965076 original size:46 final size:46
Alignment explanation
Indices: 5964904--5965076 Score: 199
Period size: 46 Copynumber: 3.7 Consensus size: 46
5964894 AACCCGCCCC
* ** * *
5964904 TAAGTGAACTCAGACTCAACTCAACGAGCCCGGGCATTCACATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTACATCCA
* *
5964950 TAAATGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT-C-
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-ATTTACATCCA
* * *
5964998 TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTACATCCA
5965043 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
5965077 TGCTCAACCA
Statistics
Matches: 107, Mismatches: 13, Indels: 14
0.80 0.10 0.10
Matches are distributed among these distances:
43 6 0.06
44 2 0.02
45 2 0.02
46 58 0.54
47 29 0.27
48 2 0.02
49 2 0.02
50 6 0.06
ACGTcount: A:0.31, C:0.28, G:0.19, T:0.21
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTACATCCA
Found at i:5965095 original size:46 final size:45
Alignment explanation
Indices: 5964954--5965095 Score: 132
Period size: 46 Copynumber: 3.1 Consensus size: 45
5964944 CATCCATAAA
5964954 TGAACTCGGACTCAACTCAACGAGTTCGGATGC-CTAGTTA-CATCTCA-
1 TGAACTCGGACTCAACTCAACGAGTTCGGATGCTC-A---ACCATCT-AG
* * * *
5965001 CGAACTCGGACTCAACTCAACGAGTTCGGACAT-TTGCATCCAT-AAG
1 TGAACTCGGACTCAACTCAACGAGTTCGG--ATGCT-CAACCATCTAG
5965047 TGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCCTAG
1 TGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCAT-CTAG
5965093 TGA
1 TGA
5965096 CATGTCACTT
Statistics
Matches: 78, Mismatches: 8, Indels: 19
0.74 0.08 0.18
Matches are distributed among these distances:
44 8 0.10
45 2 0.03
46 33 0.42
47 31 0.40
49 3 0.04
50 1 0.01
ACGTcount: A:0.29, C:0.28, G:0.20, T:0.23
Consensus pattern (45 bp):
TGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCTAG
Found at i:5969528 original size:19 final size:18
Alignment explanation
Indices: 5969499--5969542 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 18
5969489 GTATATATTT
*
5969499 TAAATTTATTTAG-GTAGA
1 TAAATTTATTT-GCATAGA
5969517 TAAATCTTATTTGCATAGA
1 TAAAT-TTATTTGCATAGA
5969536 TAAATTT
1 TAAATTT
5969543 TATTCATATT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
18 8 0.35
19 15 0.65
ACGTcount: A:0.39, C:0.05, G:0.11, T:0.45
Consensus pattern (18 bp):
TAAATTTATTTGCATAGA
Done.