Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr02 ID=Chr02-JGI_221_v2.0
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: 62769430
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1067035 characters in sequence are not A, C, G, or T
File 123 of 206
Found at i:36814729 original size:29 final size:31
Alignment explanation
Indices: 36814682--36814740 Score: 77
Period size: 29 Copynumber: 2.0 Consensus size: 31
36814672 AACATGGAAG
*
36814682 CCTTTGTGGCAAACCTCT-GAAAG-GAAATA
1 CCTTTGTGGCAAACATCTGGAAAGTGAAATA
* *
36814711 CCTTTGTGGTAAATATCTGGAAAGTGAAAT
1 CCTTTGTGGCAAACATCTGGAAAGTGAAAT
36814741 GAACTTGTAT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 15 0.60
30 5 0.20
31 5 0.20
ACGTcount: A:0.34, C:0.15, G:0.22, T:0.29
Consensus pattern (31 bp):
CCTTTGTGGCAAACATCTGGAAAGTGAAATA
Found at i:36818440 original size:10 final size:10
Alignment explanation
Indices: 36818427--36818465 Score: 51
Period size: 10 Copynumber: 3.8 Consensus size: 10
36818417 AAAGATTGGA
*
36818427 AAAGAAAACG
1 AAAGAAAAAG
*
36818437 AAAGAAAAAT
1 AAAGAAAAAG
36818447 AAAGAAAAAG
1 AAAGAAAAAG
36818457 AAAAGAAAA
1 -AAAGAAAA
36818466 GACGAGAAGG
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
10 17 0.68
11 8 0.32
ACGTcount: A:0.79, C:0.03, G:0.15, T:0.03
Consensus pattern (10 bp):
AAAGAAAAAG
Found at i:36818450 original size:20 final size:21
Alignment explanation
Indices: 36818427--36818465 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
36818417 AAAGATTGGA
*
36818427 AAAGAAAACG-AAAGAAAAAT
1 AAAGAAAAAGAAAAGAAAAAT
36818447 AAAGAAAAAGAAAAGAAAA
1 AAAGAAAAAGAAAAGAAAA
36818466 GACGAGAAGG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 9 0.53
21 8 0.47
ACGTcount: A:0.79, C:0.03, G:0.15, T:0.03
Consensus pattern (21 bp):
AAAGAAAAAGAAAAGAAAAAT
Found at i:36828338 original size:15 final size:14
Alignment explanation
Indices: 36828288--36828342 Score: 67
Period size: 15 Copynumber: 3.8 Consensus size: 14
36828278 TGCATTGAGT
36828288 GAGAAAAAGAAAAA
1 GAGAAAAAGAAAAA
*
36828302 GAGAAAAACAAAAA
1 GAGAAAAAGAAAAA
36828316 GATTG-AAAAGAAAAA
1 GA--GAAAAAGAAAAA
36828331 GAGAGAAAAGAA
1 GAGA-AAAAGAA
36828343 TGATGAGAGT
Statistics
Matches: 35, Mismatches: 2, Indels: 7
0.80 0.05 0.16
Matches are distributed among these distances:
13 1 0.03
14 15 0.43
15 18 0.51
16 1 0.03
ACGTcount: A:0.73, C:0.02, G:0.22, T:0.04
Consensus pattern (14 bp):
GAGAAAAAGAAAAA
Found at i:36833645 original size:64 final size:64
Alignment explanation
Indices: 36833568--36833695 Score: 256
Period size: 64 Copynumber: 2.0 Consensus size: 64
36833558 TGGCAGCAGG
36833568 TATGAAAGAGATTTTCTCGTTACTGCTCATTCTCCACACATTGAAGGTTTAAACTCATCTTGAT
1 TATGAAAGAGATTTTCTCGTTACTGCTCATTCTCCACACATTGAAGGTTTAAACTCATCTTGAT
36833632 TATGAAAGAGATTTTCTCGTTACTGCTCATTCTCCACACATTGAAGGTTTAAACTCATCTTGAT
1 TATGAAAGAGATTTTCTCGTTACTGCTCATTCTCCACACATTGAAGGTTTAAACTCATCTTGAT
36833696 GACAAGGGCT
Statistics
Matches: 64, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
64 64 1.00
ACGTcount: A:0.28, C:0.20, G:0.14, T:0.38
Consensus pattern (64 bp):
TATGAAAGAGATTTTCTCGTTACTGCTCATTCTCCACACATTGAAGGTTTAAACTCATCTTGAT
Found at i:36837614 original size:52 final size:51
Alignment explanation
Indices: 36837550--36837681 Score: 158
Period size: 50 Copynumber: 2.6 Consensus size: 51
36837540 ATGAGGAAAC
* * * **
36837550 GAGTTACTTAATGAATGACTTAATTTAATGATGCAGACTTAAACTAACATGG
1 GAGTTACATAATGCATGACTTAATTTAATGATGCAAACTT-AACTAACATAA
* *
36837602 GAGTTACATAATGCATGTCATAATTT-ATGATGCAAACTTAACTAACATAA
1 GAGTTACATAATGCATGACTTAATTTAATGATGCAAACTTAACTAACATAA
* * *
36837652 GAGTTACATAGTGCATGACTTTATTAAATG
1 GAGTTACATAATGCATGACTTAATTTAATG
36837682 CAGAACACAT
Statistics
Matches: 67, Mismatches: 12, Indels: 3
0.82 0.15 0.04
Matches are distributed among these distances:
50 30 0.45
51 15 0.22
52 22 0.33
ACGTcount: A:0.39, C:0.12, G:0.16, T:0.33
Consensus pattern (51 bp):
GAGTTACATAATGCATGACTTAATTTAATGATGCAAACTTAACTAACATAA
Found at i:36844267 original size:29 final size:29
Alignment explanation
Indices: 36844233--36844305 Score: 128
Period size: 29 Copynumber: 2.5 Consensus size: 29
36844223 TTAGATATTA
* *
36844233 TTAAATATGTCCTAATTAGTTTAGGTGTT
1 TTAAATATGTCCTAATTAGTTCAAGTGTT
36844262 TTAAATATGTCCTAATTAGTTCAAGTGTT
1 TTAAATATGTCCTAATTAGTTCAAGTGTT
36844291 TTAAATATGTCCTAA
1 TTAAATATGTCCTAA
36844306 ACTAATACAT
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
29 42 1.00
ACGTcount: A:0.32, C:0.10, G:0.14, T:0.45
Consensus pattern (29 bp):
TTAAATATGTCCTAATTAGTTCAAGTGTT
Found at i:36848709 original size:38 final size:37
Alignment explanation
Indices: 36848639--36848711 Score: 96
Period size: 37 Copynumber: 1.9 Consensus size: 37
36848629 CTTTCATAAT
*
36848639 TTCACTTTTTCACTTTCAATCACAATTCAATTCAAAA
1 TTCACTTTTCCACTTTCAATCACAATTCAATTCAAAA
36848676 TTCACTTTTCCA-TTTCTAAGTCA-ATATTCAATTCAA
1 TTCACTTTTCCACTTTC-AA-TCACA-ATTCAATTCAA
36848712 TTCCACACCT
Statistics
Matches: 32, Mismatches: 1, Indels: 5
0.84 0.03 0.13
Matches are distributed among these distances:
36 4 0.12
37 14 0.44
38 14 0.44
ACGTcount: A:0.33, C:0.23, G:0.01, T:0.42
Consensus pattern (37 bp):
TTCACTTTTCCACTTTCAATCACAATTCAATTCAAAA
Found at i:36848851 original size:45 final size:45
Alignment explanation
Indices: 36848787--36848876 Score: 153
Period size: 45 Copynumber: 2.0 Consensus size: 45
36848777 AACAGATACT
* *
36848787 CGGTGGATTAAGCACATAGCAACCACCTTATTAATCAATGATGTC
1 CGGTGGAATAAGCACATAGCAACCACCTTACTAATCAATGATGTC
*
36848832 CGGTGGAATCAGCACATAGCAACCACCTTACTAATCAATGATGTC
1 CGGTGGAATAAGCACATAGCAACCACCTTACTAATCAATGATGTC
36848877 TAGTTCACAT
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
45 42 1.00
ACGTcount: A:0.33, C:0.24, G:0.18, T:0.24
Consensus pattern (45 bp):
CGGTGGAATAAGCACATAGCAACCACCTTACTAATCAATGATGTC
Found at i:36848952 original size:51 final size:52
Alignment explanation
Indices: 36848889--36849021 Score: 200
Period size: 50 Copynumber: 2.6 Consensus size: 52
36848879 GTTCACATAA
*
36848889 TAGCCTGTACATAGTACTACACATGTGACCATTATCATT-CAATACACGTAG
1 TAGCCTGCACATAGTACTACACATGTGACCATTATCATTCCAATACACGTAG
* **
36848940 TAGCCTGCACATAGTACTACACATGCGA-CA-TATCATTCCGGTACACGTAG
1 TAGCCTGCACATAGTACTACACATGTGACCATTATCATTCCAATACACGTAG
*
36848990 TAGCCTGCACATAGTACTACACACGTGACCAT
1 TAGCCTGCACATAGTACTACACATGTGACCAT
36849022 CACTTTCACT
Statistics
Matches: 73, Mismatches: 6, Indels: 5
0.87 0.07 0.06
Matches are distributed among these distances:
49 7 0.10
50 38 0.52
51 28 0.38
ACGTcount: A:0.32, C:0.27, G:0.16, T:0.26
Consensus pattern (52 bp):
TAGCCTGCACATAGTACTACACATGTGACCATTATCATTCCAATACACGTAG
Found at i:36857826 original size:21 final size:21
Alignment explanation
Indices: 36857781--36857843 Score: 81
Period size: 21 Copynumber: 3.0 Consensus size: 21
36857771 TTTGAACCAT
* *
36857781 TACCAATTCGTACCAAATACCA
1 TACCATTTCGTACC-AATTCCA
*
36857803 TACCATTTCATACCAATTCCA
1 TACCATTTCGTACCAATTCCA
*
36857824 TACCATTTCGTACAAATTCC
1 TACCATTTCGTACCAATTCC
36857844 CAAATACCAA
Statistics
Matches: 36, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
21 24 0.67
22 12 0.33
ACGTcount: A:0.35, C:0.32, G:0.03, T:0.30
Consensus pattern (21 bp):
TACCATTTCGTACCAATTCCA
Found at i:36858173 original size:16 final size:16
Alignment explanation
Indices: 36858154--36858228 Score: 51
Period size: 18 Copynumber: 4.3 Consensus size: 16
36858144 AAAAAGTTCG
36858154 AAAAAAAATTTGAAAA
1 AAAAAAAATTTGAAAA
****
36858170 AAAAAACCAAAAACAAAA
1 AAAAAA--AATTTGAAAA
*
36858188 ACAAAAAATATTTCGAAAG
1 A-AAAAAA-ATTT-GAAAA
36858207 AAAAAAAATTTGAAAGA
1 AAAAAAAATTTGAAA-A
36858224 AAAAA
1 AAAAA
36858229 TTGTATACGG
Statistics
Matches: 43, Mismatches: 10, Indels: 11
0.67 0.16 0.17
Matches are distributed among these distances:
16 10 0.23
17 10 0.23
18 14 0.33
19 9 0.21
ACGTcount: A:0.73, C:0.07, G:0.07, T:0.13
Consensus pattern (16 bp):
AAAAAAAATTTGAAAA
Found at i:36858212 original size:17 final size:16
Alignment explanation
Indices: 36858190--36858229 Score: 62
Period size: 16 Copynumber: 2.4 Consensus size: 16
36858180 AAACAAAAAC
36858190 AAAAAATATTTCGAAAG
1 AAAAAATATTT-GAAAG
*
36858207 AAAAAAAATTTGAAAG
1 AAAAAATATTTGAAAG
36858223 AAAAAAT
1 AAAAAAT
36858230 TGTATACGGT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
16 11 0.52
17 10 0.48
ACGTcount: A:0.68, C:0.03, G:0.10, T:0.20
Consensus pattern (16 bp):
AAAAAATATTTGAAAG
Found at i:36860477 original size:19 final size:19
Alignment explanation
Indices: 36860449--36860503 Score: 65
Period size: 19 Copynumber: 2.7 Consensus size: 19
36860439 GCGAAAATAC
*
36860449 AAAAGAAAAGAAAAATGAAA
1 AAAAG-AAAGAAAAATCAAA
*
36860469 AAAAGAAAGAAAATTCAAA
1 AAAAGAAAGAAAAATCAAA
36860488 AAAAGAGAATGAAAAA
1 AAAAGA-AA-GAAAAA
36860504 AAAATGAGAA
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
19 18 0.60
20 7 0.23
21 5 0.17
ACGTcount: A:0.76, C:0.02, G:0.15, T:0.07
Consensus pattern (19 bp):
AAAAGAAAGAAAAATCAAA
Found at i:36864728 original size:21 final size:21
Alignment explanation
Indices: 36864683--36864745 Score: 81
Period size: 21 Copynumber: 3.0 Consensus size: 21
36864673 TTTGAACCAT
* *
36864683 TACCAATTCGTACCAAATACCA
1 TACCATTTCGTACC-AATTCCA
*
36864705 TACCATTTCATACCAATTCCA
1 TACCATTTCGTACCAATTCCA
*
36864726 TACCATTTCGTACAAATTCC
1 TACCATTTCGTACCAATTCC
36864746 CAAATACCAA
Statistics
Matches: 36, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
21 24 0.67
22 12 0.33
ACGTcount: A:0.35, C:0.32, G:0.03, T:0.30
Consensus pattern (21 bp):
TACCATTTCGTACCAATTCCA
Found at i:36865788 original size:52 final size:51
Alignment explanation
Indices: 36865722--36865853 Score: 194
Period size: 50 Copynumber: 2.6 Consensus size: 51
36865712 ATGAAGAAAT
* *
36865722 GAGTTACTTAATGCATGACTTAATTTAATGATGCAGACTTAAACTAACATGA
1 GAGTTACATAATGCATGACTTAATTTAATGATGCAAACTT-AACTAACATGA
* *
36865774 GAGTTACATAATGCATGTCATAATTT-ATGATGCAAACTTAACTAACATGA
1 GAGTTACATAATGCATGACTTAATTTAATGATGCAAACTTAACTAACATGA
* *
36865824 GAGTTACATAATGCATGACTTTATTAAATG
1 GAGTTACATAATGCATGACTTAATTTAATG
36865854 CAGAACACAT
Statistics
Matches: 71, Mismatches: 8, Indels: 3
0.87 0.10 0.04
Matches are distributed among these distances:
50 33 0.46
51 15 0.21
52 23 0.32
ACGTcount: A:0.39, C:0.13, G:0.15, T:0.33
Consensus pattern (51 bp):
GAGTTACATAATGCATGACTTAATTTAATGATGCAAACTTAACTAACATGA
Found at i:36866263 original size:33 final size:33
Alignment explanation
Indices: 36866226--36866293 Score: 102
Period size: 33 Copynumber: 2.1 Consensus size: 33
36866216 TTAAGTCCAC
* *
36866226 CTCCATGTCTGTTCGGGAACTCCAA-GTGACAAG
1 CTCCATGGCTGTTCAGGAACTCCAATG-GACAAG
36866259 CTCCATGGCTGTTCAGGAACTCCAATGGACAAG
1 CTCCATGGCTGTTCAGGAACTCCAATGGACAAG
36866292 CT
1 CT
36866294 GTTCTTTTAA
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
33 31 0.97
34 1 0.03
ACGTcount: A:0.25, C:0.28, G:0.24, T:0.24
Consensus pattern (33 bp):
CTCCATGGCTGTTCAGGAACTCCAATGGACAAG
Found at i:36879008 original size:52 final size:52
Alignment explanation
Indices: 36878930--36879030 Score: 184
Period size: 52 Copynumber: 1.9 Consensus size: 52
36878920 CATGCACATA
* *
36878930 TTTGAGCTTCAACCGAGCTAGAAATGAGGTCTTAAGCTGCTGTCTATTATTG
1 TTTGAGCTTCAACCGAGCTAGAAATGAGATCTTAAGCTGCTGTCCATTATTG
36878982 TTTGAGCTTCAACCGAGCTAGAAATGAGATCTTAAGCTGCTGTCCATTA
1 TTTGAGCTTCAACCGAGCTAGAAATGAGATCTTAAGCTGCTGTCCATTA
36879031 CGTTTCCTTA
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
52 47 1.00
ACGTcount: A:0.27, C:0.19, G:0.22, T:0.33
Consensus pattern (52 bp):
TTTGAGCTTCAACCGAGCTAGAAATGAGATCTTAAGCTGCTGTCCATTATTG
Found at i:36884570 original size:7 final size:8
Alignment explanation
Indices: 36884553--36884577 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
36884543 CAATTCCTCC
36884553 TTTATTTT
1 TTTATTTT
36884561 TTTATTTT
1 TTTATTTT
36884569 TTTATTTT
1 TTTATTTT
36884577 T
1 T
36884578 GAATCTGATT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.12, C:0.00, G:0.00, T:0.88
Consensus pattern (8 bp):
TTTATTTT
Found at i:36885714 original size:52 final size:52
Alignment explanation
Indices: 36885657--36885757 Score: 175
Period size: 52 Copynumber: 1.9 Consensus size: 52
36885647 CATGCACATA
* * *
36885657 TTTGAGCTTCAATCGAGCTAGAAATGAGGTCTTAAGCTGCTGTCTATTATTG
1 TTTGAGCTTCAACCGAGCTAGAAATGAGATCTTAAGCTGCTGTCCATTATTG
36885709 TTTGAGCTTCAACCGAGCTAGAAATGAGATCTTAAGCTGCTGTCCATTA
1 TTTGAGCTTCAACCGAGCTAGAAATGAGATCTTAAGCTGCTGTCCATTA
36885758 CGTTTCCTTA
Statistics
Matches: 46, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
52 46 1.00
ACGTcount: A:0.27, C:0.18, G:0.22, T:0.34
Consensus pattern (52 bp):
TTTGAGCTTCAACCGAGCTAGAAATGAGATCTTAAGCTGCTGTCCATTATTG
Found at i:36895904 original size:7 final size:7
Alignment explanation
Indices: 36895892--36895916 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
36895882 TTAAGTTTAA
36895892 TTTTCTG
1 TTTTCTG
36895899 TTTTCTG
1 TTTTCTG
36895906 TTTTCTG
1 TTTTCTG
36895913 TTTT
1 TTTT
36895917 AATTTTAGAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.00, C:0.12, G:0.12, T:0.76
Consensus pattern (7 bp):
TTTTCTG
Found at i:36898245 original size:13 final size:14
Alignment explanation
Indices: 36898221--36898250 Score: 53
Period size: 13 Copynumber: 2.2 Consensus size: 14
36898211 TTAAGATGTG
36898221 TAAGTCTAGCTAGC
1 TAAGTCTAGCTAGC
36898235 TAAGT-TAGCTAGC
1 TAAGTCTAGCTAGC
36898248 TAA
1 TAA
36898251 TTCAAATTCA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 11 0.69
14 5 0.31
ACGTcount: A:0.33, C:0.17, G:0.20, T:0.30
Consensus pattern (14 bp):
TAAGTCTAGCTAGC
Found at i:36904475 original size:50 final size:50
Alignment explanation
Indices: 36904349--36904832 Score: 481
Period size: 50 Copynumber: 9.6 Consensus size: 50
36904339 TGATAATAAC
* * ** * * *
36904349 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGAGATGTTTCCTGT--
1 ATGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCG
* * * * **
36904397 ACTGCCAATGTCATATCCCAGATATGGTCTTACATGGGAGTTCTCATATCG
1 A-TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCG
* * ** * **
36904448 ATGCCCATGCCATGTCCCAGACATGGTCTTACGGGGGACCTTTCATCCCG
1 ATGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCG
*
36904498 ATGCCAACGCCATGTCCCAAACATGGTCTTACATGGGACCTCTCATATCG
1 ATGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCG
* * *
36904548 GTGCCAACGCCATGTCCCAGACATAGTCTTACATGGGACCTCTCATCTCG
1 ATGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCG
* * * * *
36904598 GTGCCAACGCCATGTCCTAGACATAGTCTTACATGGGATCTCTCATCTCG
1 ATGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCG
* * * *
36904648 GTGCCAACGCCATGTCCCAGACATGGTCTTACATGAGACCTCTCATCTTG
1 ATGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCG
*
36904698 GTGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATAATCTCAATG
1 ATGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCAT-A--TC---G
* * * ** * *
36904754 ATGTCAATGCCATGTCCCAAACATGGTCTTACA--CAAGCTCACATATCG
1 ATGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCG
* * *
36904802 ATGTCGATGCCATGTCCCAGACATGGTCTTA
1 ATGCCAACGCCATGTCCCAGACATGGTCTTA
36904833 TACGAGATCG
Statistics
Matches: 374, Mismatches: 53, Indels: 18
0.84 0.12 0.04
Matches are distributed among these distances:
48 31 0.08
49 37 0.10
50 264 0.71
51 3 0.01
53 2 0.01
54 7 0.02
56 30 0.08
ACGTcount: A:0.24, C:0.30, G:0.20, T:0.26
Consensus pattern (50 bp):
ATGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCG
Found at i:36904852 original size:48 final size:48
Alignment explanation
Indices: 36904753--36904855 Score: 125
Period size: 48 Copynumber: 2.1 Consensus size: 48
36904743 TAATCTCAAT
* * *
36904753 GATGTCAATGCCATGTCCCAAACATGGTCTTACACAAGCTCACATATC
1 GATGTCAATGCCATGTCCCAAACATGGTCTTACACAAGATCACACACC
* * * * * *
36904801 GATGTCGATGCCATGTCCCAGACATGGTCTTATACGAGATCGCACGCC
1 GATGTCAATGCCATGTCCCAAACATGGTCTTACACAAGATCACACACC
36904849 GATGTCA
1 GATGTCA
36904856 TATCTCAGAT
Statistics
Matches: 45, Mismatches: 10, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
48 45 1.00
ACGTcount: A:0.27, C:0.28, G:0.20, T:0.24
Consensus pattern (48 bp):
GATGTCAATGCCATGTCCCAAACATGGTCTTACACAAGATCACACACC
Found at i:36906738 original size:17 final size:17
Alignment explanation
Indices: 36906718--36906759 Score: 66
Period size: 17 Copynumber: 2.5 Consensus size: 17
36906708 CTTGTCTCAA
*
36906718 ATGATTTATTGTATCTC
1 ATGATTTATTATATCTC
36906735 ATGATTTATTATATCTC
1 ATGATTTATTATATCTC
*
36906752 ATAATTTA
1 ATGATTTA
36906760 AAATTCCATT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
17 23 1.00
ACGTcount: A:0.31, C:0.10, G:0.07, T:0.52
Consensus pattern (17 bp):
ATGATTTATTATATCTC
Found at i:36907920 original size:23 final size:23
Alignment explanation
Indices: 36907889--36907941 Score: 88
Period size: 23 Copynumber: 2.3 Consensus size: 23
36907879 ACCTATTTTC
* *
36907889 TTACTGTAGTAATTTTCGGGGTA
1 TTACAGTAGTAATTTTCGGGATA
36907912 TTACAGTAGTAATTTTCGGGATA
1 TTACAGTAGTAATTTTCGGGATA
36907935 TTACAGT
1 TTACAGT
36907942 GTTGGTGCCA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 28 1.00
ACGTcount: A:0.26, C:0.09, G:0.23, T:0.42
Consensus pattern (23 bp):
TTACAGTAGTAATTTTCGGGATA
Found at i:36912840 original size:8 final size:9
Alignment explanation
Indices: 36912817--36912849 Score: 50
Period size: 9 Copynumber: 3.8 Consensus size: 9
36912807 TTTAATTTTC
36912817 AAAATTTAT
1 AAAATTTAT
36912826 AAAATTTAT
1 AAAATTTAT
*
36912835 -AAATTTAC
1 AAAATTTAT
36912843 AAAATTT
1 AAAATTT
36912850 TCACAGGCTC
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
8 7 0.32
9 15 0.68
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.42
Consensus pattern (9 bp):
AAAATTTAT
Found at i:36919190 original size:21 final size:20
Alignment explanation
Indices: 36919166--36919227 Score: 72
Period size: 19 Copynumber: 3.1 Consensus size: 20
36919156 TGATAATGAG
*
36919166 AGAAAATGAGCGAAAAATAAA
1 AGAAAATGAGAGAAAAA-AAA
* *
36919187 AGAAATTGAGAGAAGAAAAA
1 AGAAAATGAGAGAAAAAAAA
*
36919207 AG-AAATGAGAGAAAAAGAA
1 AGAAAATGAGAGAAAAAAAA
36919226 AG
1 AG
36919228 CTTGAAGGAA
Statistics
Matches: 35, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
19 16 0.46
20 5 0.14
21 14 0.40
ACGTcount: A:0.66, C:0.02, G:0.24, T:0.08
Consensus pattern (20 bp):
AGAAAATGAGAGAAAAAAAA
Found at i:36919215 original size:19 final size:20
Alignment explanation
Indices: 36919169--36919222 Score: 74
Period size: 20 Copynumber: 2.7 Consensus size: 20
36919159 TAATGAGAGA
*
36919169 AAATGAGCGAAAAATAAAAG
1 AAATGAGAGAAAAATAAAAG
*
36919189 AAATTGAGAGAAGAA-AAAAG
1 AAA-TGAGAGAAAAATAAAAG
36919209 AAATGAGAGAAAAA
1 AAATGAGAGAAAAA
36919223 GAAAGCTTGA
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
19 10 0.33
20 11 0.37
21 9 0.30
ACGTcount: A:0.67, C:0.02, G:0.22, T:0.09
Consensus pattern (20 bp):
AAATGAGAGAAAAATAAAAG
Found at i:36927719 original size:51 final size:52
Alignment explanation
Indices: 36927639--36927872 Score: 266
Period size: 51 Copynumber: 4.6 Consensus size: 52
36927629 AGTTGCTAAA
* *
36927639 TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTATCAGATGAAAAT-GG
1 TCACATGTGTAGTACTATGTGCAGGCTACTACGTGTATCGGATGAAAATAGG
* *
36927690 TCACGTGTGTAGTACTATGTGCAGACTACTACGTGTA-CTGGAATG---ATAGG
1 TCACATGTGTAGTACTATGTGCAGGCTACTACGTGTATC-GG-ATGAAAATAGG
* * * * *** * *
36927740 TCGCATGTGTAGTACTATGTGCAGGCTACTATGCGTACCGGAT-AGCTTCGA
1 TCACATGTGTAGTACTATGTGCAGGCTACTACGTGTATCGGATGAAAATAGG
* *
36927791 TCACATGTGTAGTACTATATGCAGGCTACTACGTATATCGGATGAAAATA-G
1 TCACATGTGTAGTACTATGTGCAGGCTACTACGTGTATCGGATGAAAATAGG
36927842 TCACATGTGTAGTACTATGTGCAGGCTACTA
1 TCACATGTGTAGTACTATGTGCAGGCTACTA
36927873 TGTGAACCGG
Statistics
Matches: 153, Mismatches: 22, Indels: 16
0.80 0.12 0.08
Matches are distributed among these distances:
49 4 0.03
50 37 0.24
51 107 0.70
52 5 0.03
ACGTcount: A:0.27, C:0.18, G:0.26, T:0.30
Consensus pattern (52 bp):
TCACATGTGTAGTACTATGTGCAGGCTACTACGTGTATCGGATGAAAATAGG
Found at i:36927820 original size:101 final size:100
Alignment explanation
Indices: 36927639--36927874 Score: 271
Period size: 101 Copynumber: 2.3 Consensus size: 100
36927629 AGTTGCTAAA
* * * * * *
36927639 TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTATCAGATGAAAATGGTCACGTGTGTAGTA
1 TCACATGTGTAGTACTATGTGCAGGCTACTATGCGTACCAGATGAAAATGATCACATGTGTAGTA
* *
36927704 CTATGTGCAGACTACTACGTGTA-CTGGAATG-ATAGG
66 CTATATGCAGACTACTACGTATATC-GG-ATGAATA-G
* * ***
36927740 TCGCATGTGTAGTACTATGTGCAGGCTACTATGCGTACCGGAT-AGCTTCGATCACATGTGTAGT
1 TCACATGTGTAGTACTATGTGCAGGCTACTATGCGTACCAGATGAAAAT-GATCACATGTGTAGT
*
36927804 ACTATATGCAGGCTACTACGTATATCGGATGAAAATAG
65 ACTATATGCAGACTACTACGTATATCGGATG--AATAG
36927842 TCACATGTGTAGTACTATGTGCAGGCTACTATG
1 TCACATGTGTAGTACTATGTGCAGGCTACTATG
36927875 TGAACCGGGT
Statistics
Matches: 115, Mismatches: 15, Indels: 9
0.83 0.11 0.06
Matches are distributed among these distances:
100 5 0.04
101 73 0.63
102 34 0.30
103 3 0.03
ACGTcount: A:0.27, C:0.17, G:0.26, T:0.30
Consensus pattern (100 bp):
TCACATGTGTAGTACTATGTGCAGGCTACTATGCGTACCAGATGAAAATGATCACATGTGTAGTA
CTATATGCAGACTACTACGTATATCGGATGAATAG
Found at i:36933950 original size:26 final size:27
Alignment explanation
Indices: 36933921--36933971 Score: 68
Period size: 27 Copynumber: 1.9 Consensus size: 27
36933911 TTCCTTTCCT
* *
36933921 TAGATCGCGAC-AAGTCTTCCATTTCA
1 TAGATCGCCACAAAGGCTTCCATTTCA
*
36933947 TAGATTGCCACAAAGGCTTCCATTT
1 TAGATCGCCACAAAGGCTTCCATTT
36933972 TGTTGGCGTG
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
26 9 0.43
27 12 0.57
ACGTcount: A:0.27, C:0.25, G:0.16, T:0.31
Consensus pattern (27 bp):
TAGATCGCCACAAAGGCTTCCATTTCA
Found at i:36937281 original size:22 final size:22
Alignment explanation
Indices: 36937235--36937305 Score: 74
Period size: 22 Copynumber: 3.2 Consensus size: 22
36937225 TGTTGAACGA
* *
36937235 TAGGCACCA-AAGTGTAAATCTG
1 TAGGCA-CAGAAGTGCAAATCAG
*
36937257 TAGGCACCGAAGTGCAGAA-CAG
1 TAGGCACAGAAGTGCA-AATCAG
*
36937279 TAGGCATAGAAGTGCAAATCAG
1 TAGGCACAGAAGTGCAAATCAG
36937301 TAGGC
1 TAGGC
36937306 TCGTAGTGAA
Statistics
Matches: 41, Mismatches: 5, Indels: 6
0.79 0.10 0.12
Matches are distributed among these distances:
21 3 0.07
22 36 0.88
23 2 0.05
ACGTcount: A:0.37, C:0.18, G:0.28, T:0.17
Consensus pattern (22 bp):
TAGGCACAGAAGTGCAAATCAG
Found at i:36951501 original size:47 final size:44
Alignment explanation
Indices: 36951402--36951503 Score: 107
Period size: 44 Copynumber: 2.2 Consensus size: 44
36951392 AATATTTTAC
* * * *
36951402 TTAATTTGTCTAAATTATTACAGCAATATGAGTGTTTAAGTTAT
1 TTAATTTGTCTAAATTACTACAGCAATATAAGTGTTTAACTAAT
* *
36951446 TTAGTTTGTCTAGATTACTACAGCAA-ATTAAGTTGTCTTCAACTAAT
1 TTAATTTGTCTAAATTACTACAGCAATA-TAAG-TGT-TT-AACTAAT
36951493 TTAATTTGTCT
1 TTAATTTGTCT
36951504 TGTTTGCAGC
Statistics
Matches: 47, Mismatches: 7, Indels: 5
0.80 0.12 0.08
Matches are distributed among these distances:
43 1 0.02
44 26 0.55
45 3 0.06
46 2 0.04
47 15 0.32
ACGTcount: A:0.31, C:0.11, G:0.13, T:0.45
Consensus pattern (44 bp):
TTAATTTGTCTAAATTACTACAGCAATATAAGTGTTTAACTAAT
Found at i:36954873 original size:21 final size:20
Alignment explanation
Indices: 36954828--36954864 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
36954818 AGGTTGAAAA
*
36954828 AGAAAAAGAAAAGAATGATG
1 AGAAAAAGAAAAGAAAGATG
36954848 AGAAAAAGAAAA-AAAGA
1 AGAAAAAGAAAAGAAAGA
36954865 AGTGAGAAAG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
19 4 0.25
20 12 0.75
ACGTcount: A:0.73, C:0.00, G:0.22, T:0.05
Consensus pattern (20 bp):
AGAAAAAGAAAAGAAAGATG
Found at i:36958073 original size:47 final size:44
Alignment explanation
Indices: 36957972--36958075 Score: 111
Period size: 44 Copynumber: 2.3 Consensus size: 44
36957962 AAACTATTTT
* * * *
36957972 ATTTAATTTGTCTAAATTAGTACAGCAATATGAGTGTTTAAGTT
1 ATTTAATTTGTCTAAATTACTACAGCAATATAAGTGTTTAACTA
* *
36958016 ATTTAGTTTGTCTAGATTACTACAGCAA-ATTAAGTTGTCTTCAACTA
1 ATTTAATTTGTCTAAATTACTACAGCAATA-TAAG-TGT-TT-AACTA
36958063 ATTTAATTTGTCT
1 ATTTAATTTGTCT
36958076 TGTTTGCAGC
Statistics
Matches: 49, Mismatches: 7, Indels: 5
0.80 0.11 0.08
Matches are distributed among these distances:
43 1 0.02
44 28 0.57
45 3 0.06
46 2 0.04
47 15 0.31
ACGTcount: A:0.32, C:0.11, G:0.13, T:0.44
Consensus pattern (44 bp):
ATTTAATTTGTCTAAATTACTACAGCAATATAAGTGTTTAACTA
Found at i:36959966 original size:50 final size:49
Alignment explanation
Indices: 36959907--36960043 Score: 211
Period size: 50 Copynumber: 2.8 Consensus size: 49
36959897 GGCAGTGAGT
* *
36959907 GTGCAGTGTAAGACCATGTCTGGGACATGGCATCGGCACAGACCGATGA
1 GTGCAGTGTAAGACCATGTCTGGGACATGGCATCGGCACAGACAGAGGA
* *
36959956 GTGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCACGGACATAGGA
1 GTGC-AGTGTAAGACCATGTCTGGGACATGGCATCGGCACAGACAGAGGA
*
36960006 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGC
1 GTG-CAGTGTAAGACCATGTCTGGGACATGGCATCGGC
36960044 TCGAGTGTAA
Statistics
Matches: 81, Mismatches: 5, Indels: 3
0.91 0.06 0.03
Matches are distributed among these distances:
49 4 0.05
50 76 0.94
51 1 0.01
ACGTcount: A:0.26, C:0.22, G:0.34, T:0.19
Consensus pattern (49 bp):
GTGCAGTGTAAGACCATGTCTGGGACATGGCATCGGCACAGACAGAGGA
Found at i:36960052 original size:36 final size:36
Alignment explanation
Indices: 36960011--36960131 Score: 143
Period size: 36 Copynumber: 3.1 Consensus size: 36
36960001 TAGGAGAGCC
36960011 AGTGTAAGACCATGTCTGGGACATGGCATCGGCTCG
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCTCG
36960047 AGTGTAAGACCATGTCTGGGACATGGCATCGGCTCAAGATGAGAG
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCTC---------G
36960092 CCAGTGTAAGACCATGTCTGGGACATGGCATCGGCTCG
1 --AGTGTAAGACCATGTCTGGGACATGGCATCGGCTCG
36960130 AG
1 AG
36960132 ATGAGGGCCA
Statistics
Matches: 74, Mismatches: 0, Indels: 22
0.77 0.00 0.23
Matches are distributed among these distances:
36 37 0.50
38 1 0.01
45 1 0.01
47 35 0.47
ACGTcount: A:0.25, C:0.21, G:0.33, T:0.21
Consensus pattern (36 bp):
AGTGTAAGACCATGTCTGGGACATGGCATCGGCTCG
Found at i:36960116 original size:47 final size:47
Alignment explanation
Indices: 36960047--36960217 Score: 245
Period size: 47 Copynumber: 3.6 Consensus size: 47
36960037 CATCGGCTCG
*
36960047 AGTGTAAGACCATGTCTGGGACATGGCATCGGCTCAAGATGAGAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCTCGAGATGAGAGCC
*
36960094 AGTGTAAGACCATGTCTGGGACATGGCATCGGCTCGAGATGAGGGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCTCGAGATGAGAGCC
* * * *
36960141 AGAGTAAGACCATGTCTGGGACATGGCATCGGCATCGATATGTGATTCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGC-TCGAGATGAGA-GCC
* *
36960190 A-TGTAAGACCATATCTGGGATATGGCAT
1 AGTGTAAGACCATGTCTGGGACATGGCAT
36960218 TGGCGTCCTA
Statistics
Matches: 112, Mismatches: 10, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
47 77 0.69
48 32 0.29
49 3 0.03
ACGTcount: A:0.27, C:0.20, G:0.31, T:0.22
Consensus pattern (47 bp):
AGTGTAAGACCATGTCTGGGACATGGCATCGGCTCGAGATGAGAGCC
Found at i:36960119 original size:83 final size:85
Alignment explanation
Indices: 36959961--36960131 Score: 292
Period size: 83 Copynumber: 2.0 Consensus size: 85
36959951 GATGAGTGCT
*
36959961 AGTGTAAGACCATGTCTGGGACATGGCATCGGCACGGACATAGGAGAGCCAGTGTAAGACCATGT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCAC-GACAGAGGAGAGCCAGTGTAAGACCATGT
36960026 CTGGGACATGGCATCGGCTCG
65 CTGGGACATGGCATCGGCTCG
* *
36960047 AGTGTAAGACCATGTCTGGGACATGGCATCGGCTC-A-AGATGAGAGCCAGTGTAAGACCATGTC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCACGACAGAGGAGAGCCAGTGTAAGACCATGTC
36960110 TGGGACATGGCATCGGCTCG
66 TGGGACATGGCATCGGCTCG
36960130 AG
1 AG
36960132 ATGAGGGCCA
Statistics
Matches: 82, Mismatches: 3, Indels: 3
0.93 0.03 0.03
Matches are distributed among these distances:
83 47 0.57
84 1 0.01
86 34 0.41
ACGTcount: A:0.26, C:0.22, G:0.33, T:0.19
Consensus pattern (85 bp):
AGTGTAAGACCATGTCTGGGACATGGCATCGGCACGACAGAGGAGAGCCAGTGTAAGACCATGTC
TGGGACATGGCATCGGCTCG
Found at i:36971466 original size:20 final size:21
Alignment explanation
Indices: 36971441--36971490 Score: 68
Period size: 21 Copynumber: 2.4 Consensus size: 21
36971431 ACACAATGTG
36971441 TGTGTTGCA-ACAC-ATAGCCT
1 TGTGTTG-AGACACAATAGCCT
*
36971461 TGTGTTGAGCCACAATAGCCT
1 TGTGTTGAGACACAATAGCCT
36971482 TGTGTTGAG
1 TGTGTTGAG
36971491 CCATAAGCCT
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
19 1 0.04
20 10 0.37
21 16 0.59
ACGTcount: A:0.22, C:0.20, G:0.26, T:0.32
Consensus pattern (21 bp):
TGTGTTGAGACACAATAGCCT
Found at i:36971502 original size:19 final size:21
Alignment explanation
Indices: 36971454--36971493 Score: 80
Period size: 21 Copynumber: 1.9 Consensus size: 21
36971444 GTTGCAACAC
36971454 ATAGCCTTGTGTTGAGCCACA
1 ATAGCCTTGTGTTGAGCCACA
36971475 ATAGCCTTGTGTTGAGCCA
1 ATAGCCTTGTGTTGAGCCA
36971494 TAAGCCTTGA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.23, C:0.23, G:0.25, T:0.30
Consensus pattern (21 bp):
ATAGCCTTGTGTTGAGCCACA
Found at i:36974377 original size:21 final size:21
Alignment explanation
Indices: 36974346--36974399 Score: 58
Period size: 21 Copynumber: 2.7 Consensus size: 21
36974336 TGAAAGAGGC
36974346 ACACAC-T-CGTGTACAAGAA
1 ACACACGTCCGTGTACAAGAA
**
36974365 ACACACGTCCGTGTGGAAGAA
1 ACACACGTCCGTGTACAAGAA
* *
36974386 GCACACGACCGTGT
1 ACACACGTCCGTGT
36974400 GGAGGAGACA
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
19 6 0.21
20 1 0.03
21 22 0.76
ACGTcount: A:0.33, C:0.28, G:0.24, T:0.15
Consensus pattern (21 bp):
ACACACGTCCGTGTACAAGAA
Found at i:36974400 original size:21 final size:21
Alignment explanation
Indices: 36974360--36974421 Score: 72
Period size: 21 Copynumber: 3.0 Consensus size: 21
36974350 ACTCGTGTAC
*
36974360 AAGAAACACACGTCCGTGTGG
1 AAGAAACACACGACCGTGTGG
*
36974381 AAGAAGCACACGACCGTGTGG
1 AAGAAACACACGACCGTGTGG
* *
36974402 AGGAGACACAC-ACCCGTGTG
1 AAGAAACACACGA-CCGTGTG
36974422 TTTGAGTTAC
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
20 1 0.03
21 34 0.97
ACGTcount: A:0.32, C:0.26, G:0.31, T:0.11
Consensus pattern (21 bp):
AAGAAACACACGACCGTGTGG
Found at i:36979235 original size:16 final size:15
Alignment explanation
Indices: 36979188--36979235 Score: 53
Period size: 16 Copynumber: 3.1 Consensus size: 15
36979178 TTCTTTTTCA
*
36979188 TTCTTTCTTTCTTTT
1 TTCTTTGTTTCTTTT
36979203 TTCTTCTGTTT-TGTTT
1 TTCTT-TGTTTCT-TTT
36979219 TTACTTTGTTTCTTTT
1 TT-CTTTGTTTCTTTT
36979235 T
1 T
36979236 AATTCTTTTA
Statistics
Matches: 28, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
15 6 0.21
16 18 0.64
17 4 0.14
ACGTcount: A:0.02, C:0.15, G:0.06, T:0.77
Consensus pattern (15 bp):
TTCTTTGTTTCTTTT
Found at i:36979278 original size:10 final size:11
Alignment explanation
Indices: 36979265--36979302 Score: 55
Period size: 10 Copynumber: 3.7 Consensus size: 11
36979255 TTTGTTTTAT
36979265 TATATAT-TAA
1 TATATATATAA
36979275 TATAT-TATAA
1 TATATATATAA
36979285 TATA-ATATAA
1 TATATATATAA
36979295 TATATATA
1 TATATATA
36979303 CTTAACACTT
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
9 1 0.04
10 21 0.84
11 3 0.12
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (11 bp):
TATATATATAA
Found at i:36979282 original size:15 final size:16
Alignment explanation
Indices: 36979262--36979302 Score: 59
Period size: 15 Copynumber: 2.7 Consensus size: 16
36979252 TATTTTGTTT
36979262 TATTATATAT-TAATA
1 TATTATATATATAATA
36979277 TATTATA-ATATAATA
1 TATTATATATATAATA
*
36979292 TAATATATATA
1 TATTATATATA
36979303 CTTAACACTT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
14 2 0.09
15 18 0.78
16 3 0.13
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (16 bp):
TATTATATATATAATA
Found at i:36979421 original size:20 final size:20
Alignment explanation
Indices: 36979396--36979433 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
36979386 GCATAATTGC
36979396 TTCTTTAGTCTCTTTAATTT
1 TTCTTTAGTCTCTTTAATTT
36979416 TTCTTTAGTCTCTTTAAT
1 TTCTTTAGTCTCTTTAAT
36979434 ATAATATAAT
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:0.16, C:0.16, G:0.05, T:0.63
Consensus pattern (20 bp):
TTCTTTAGTCTCTTTAATTT
Found at i:36979550 original size:148 final size:148
Alignment explanation
Indices: 36979282--36979570 Score: 551
Period size: 148 Copynumber: 2.0 Consensus size: 148
36979272 TAATATATTA
*
36979282 TAATATAATATAATATATATACTTAACACTTAAGGTTTATTTTATAATATATATAATAAATTCAC
1 TAATATAATATAATATATATACTTAACACTTAAGGTTTACTTTATAATATATATAATAAATTCAC
*
36979347 AAAAAAATCTACCTTATGCCGCCTCATAAAGAAACAATGGCATAATTGCTTCTTTAGTCTCTTTA
66 AAAAAAATCTACCTTATGCCACCTCATAAAGAAACAATGGCATAATTGCTTCTTTAGTCTCTTTA
36979412 ATTTTTCTTTAGTCTCTT
131 ATTTTTCTTTAGTCTCTT
36979430 TAATATAATATAATATATATACTTAACACTTAAGGTTTACTTTATAATATATATAATAAATTCAC
1 TAATATAATATAATATATATACTTAACACTTAAGGTTTACTTTATAATATATATAATAAATTCAC
*
36979495 AAAAAAATCTACCTTATGCCACCTCATAAAGAAACAATGGCATCATTGCTTCTTTAGTCTCTTTA
66 AAAAAAATCTACCTTATGCCACCTCATAAAGAAACAATGGCATAATTGCTTCTTTAGTCTCTTTA
36979560 ATTTTTCTTTA
131 ATTTTTCTTTA
36979571 ATCTATAACT
Statistics
Matches: 138, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
148 138 1.00
ACGTcount: A:0.38, C:0.15, G:0.06, T:0.40
Consensus pattern (148 bp):
TAATATAATATAATATATATACTTAACACTTAAGGTTTACTTTATAATATATATAATAAATTCAC
AAAAAAATCTACCTTATGCCACCTCATAAAGAAACAATGGCATAATTGCTTCTTTAGTCTCTTTA
ATTTTTCTTTAGTCTCTT
Found at i:36980583 original size:27 final size:25
Alignment explanation
Indices: 36980561--36980615 Score: 67
Period size: 25 Copynumber: 2.2 Consensus size: 25
36980551 TTTTTTTATT
36980561 TAAAAATAATAAATT-ATACTTTTTA
1 TAAAAA-AATAAATTGATACTTTTTA
* *
36980586 TCAAAAAATTAATTGATACTTTTTAA
1 TAAAAAAATAAATTGATACTTTTT-A
36980612 TAAA
1 TAAA
36980616 TTTTTATATA
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
24 7 0.28
25 14 0.56
26 4 0.16
ACGTcount: A:0.51, C:0.05, G:0.02, T:0.42
Consensus pattern (25 bp):
TAAAAAAATAAATTGATACTTTTTA
Found at i:36980604 original size:25 final size:25
Alignment explanation
Indices: 36980563--36980610 Score: 71
Period size: 25 Copynumber: 1.9 Consensus size: 25
36980553 TTTTTATTTA
36980563 AAAATAATAAATTATACTTTTTATC
1 AAAATAATAAATTATACTTTTTATC
*
36980588 AAAA-AATTAATTGATACTTTTTA
1 AAAATAATAAATT-ATACTTTTTA
36980611 ATAAATTTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 7 0.33
25 14 0.67
ACGTcount: A:0.48, C:0.06, G:0.02, T:0.44
Consensus pattern (25 bp):
AAAATAATAAATTATACTTTTTATC
Found at i:36983159 original size:31 final size:30
Alignment explanation
Indices: 36983094--36983160 Score: 80
Period size: 30 Copynumber: 2.2 Consensus size: 30
36983084 AAACTTTTAT
* * * * *
36983094 TTTTTTAGTTATTAAATTATTTGATTTAAT
1 TTTTTTAATTATTAAACTATTCGAATTAAA
36983124 TTTTTTAATTATTAAACTATTCGAAATTAAA
1 TTTTTTAATTATTAAACTATTCG-AATTAAA
36983155 TTTTTT
1 TTTTTT
36983161 GATCACCAAA
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
30 20 0.65
31 11 0.35
ACGTcount: A:0.33, C:0.03, G:0.04, T:0.60
Consensus pattern (30 bp):
TTTTTTAATTATTAAACTATTCGAATTAAA
Found at i:36983362 original size:38 final size:38
Alignment explanation
Indices: 36983319--36983403 Score: 143
Period size: 38 Copynumber: 2.2 Consensus size: 38
36983309 TATGTTGAAT
***
36983319 AAACAAAATGGAAGAAAAAAACTGTGGTATGTACAATG
1 AAACAAAATGGAAGAAAAAAAAACTGGTATGTACAATG
36983357 AAACAAAATGGAAGAAAAAAAAACTGGTATGTACAATG
1 AAACAAAATGGAAGAAAAAAAAACTGGTATGTACAATG
36983395 AAACAAAAT
1 AAACAAAAT
36983404 AAGGAAAAAT
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
38 44 1.00
ACGTcount: A:0.58, C:0.08, G:0.18, T:0.16
Consensus pattern (38 bp):
AAACAAAATGGAAGAAAAAAAAACTGGTATGTACAATG
Found at i:36987349 original size:40 final size:39
Alignment explanation
Indices: 36987291--36987406 Score: 151
Period size: 39 Copynumber: 2.9 Consensus size: 39
36987281 AAAATTATTG
36987291 CATACGTGCCCCTGTTTGTACTTCGGTACCCCTGAATGCA
1 CATACGTGCCCCTGTTTGTACTTCGGTA-CCCTGAATGCA
* * * *
36987331 CATACGTGCTCCTATTTGTACTTCGATACCTTGAATGCA
1 CATACGTGCCCCTGTTTGTACTTCGGTACCCTGAATGCA
* * *
36987370 CATTCGTGCCCCTGTTTATACTTCGGTAACTCTGAAT
1 CATACGTGCCCCTGTTTGTACTTCGGT-ACCCTGAAT
36987407 CAAATAGTAT
Statistics
Matches: 64, Mismatches: 11, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
39 32 0.50
40 32 0.50
ACGTcount: A:0.20, C:0.28, G:0.17, T:0.34
Consensus pattern (39 bp):
CATACGTGCCCCTGTTTGTACTTCGGTACCCTGAATGCA
Found at i:36992840 original size:52 final size:50
Alignment explanation
Indices: 36992720--36992842 Score: 158
Period size: 50 Copynumber: 2.4 Consensus size: 50
36992710 GCATTTAATA
* *
36992720 AAGTCATGCATTATGTAACTCTCATATTATTTAAGTTTACATCATAAATT
1 AAGTCATGCATTATGTAACTCCCATATTATTAAAGTTTACATCATAAATT
* * * *
36992770 ATGACATGCATTATGTAACTCCCATGTTAGTTAAAGTTTGCATCACTAAATT
1 AAGTCATGCATTATGTAACTCCCATATTA-TTAAAGTTTACATCA-TAAATT
36992822 AAGTCATGCATTCA-GTAACTC
1 AAGTCATGCATT-ATGTAACTC
36992843 ATTTGTTCAT
Statistics
Matches: 62, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
50 25 0.40
51 13 0.21
52 23 0.37
53 1 0.02
ACGTcount: A:0.34, C:0.17, G:0.11, T:0.37
Consensus pattern (50 bp):
AAGTCATGCATTATGTAACTCCCATATTATTAAAGTTTACATCATAAATT
Found at i:36998420 original size:35 final size:35
Alignment explanation
Indices: 36998369--36998441 Score: 128
Period size: 35 Copynumber: 2.1 Consensus size: 35
36998359 GAATTATCTT
*
36998369 AATTTCATGACTTGAAATTAATTATTTAAACAAAC
1 AATTGCATGACTTGAAATTAATTATTTAAACAAAC
*
36998404 AATTGCATGATTTGAAATTAATTATTTAAACAAAC
1 AATTGCATGACTTGAAATTAATTATTTAAACAAAC
36998439 AAT
1 AAT
36998442 CTTGCAAACA
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
35 36 1.00
ACGTcount: A:0.47, C:0.10, G:0.07, T:0.37
Consensus pattern (35 bp):
AATTGCATGACTTGAAATTAATTATTTAAACAAAC
Found at i:37000362 original size:50 final size:50
Alignment explanation
Indices: 37000257--37000363 Score: 124
Period size: 50 Copynumber: 2.1 Consensus size: 50
37000247 TTATTGAGAT
* * *
37000257 TATGAGAGGTCCCACATAAGACCATGCCTGGGACATGGCGTTGGTACCAA
1 TATGAGAGGTCCCACATAAGACCATGCCTGGGACATGGCATGGGCACCAA
* * * * * * *
37000307 GATGAGAGGTCCCCCGTAGGACCATGTCTGGGACATGGCATGGGCATCGA
1 TATGAGAGGTCCCACATAAGACCATGCCTGGGACATGGCATGGGCACCAA
37000357 TATGAGA
1 TATGAGA
37000364 ACTCTCATGT
Statistics
Matches: 46, Mismatches: 11, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
50 46 1.00
ACGTcount: A:0.26, C:0.22, G:0.32, T:0.20
Consensus pattern (50 bp):
TATGAGAGGTCCCACATAAGACCATGCCTGGGACATGGCATGGGCACCAA
Found at i:37000679 original size:20 final size:20
Alignment explanation
Indices: 37000654--37000692 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
37000644 TGATTTATTT
37000654 AAGTAAGCA-AGTAAGTAAAC
1 AAGTAAG-AGAGTAAGTAAAC
37000674 AAGTAAGAGAGTAAGTAAA
1 AAGTAAGAGAGTAAGTAAA
37000693 GAAGAAAGTA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 1 0.06
20 17 0.94
ACGTcount: A:0.56, C:0.05, G:0.23, T:0.15
Consensus pattern (20 bp):
AAGTAAGAGAGTAAGTAAAC
Found at i:37025811 original size:26 final size:25
Alignment explanation
Indices: 37025782--37025852 Score: 97
Period size: 26 Copynumber: 2.8 Consensus size: 25
37025772 GTTGTACATA
* *
37025782 TATGCTCACACGAGTTGTGGAATGAG
1 TATGCTCACACGAGCTGTGAAATG-G
37025808 TATGCTCACACGAGCTGTGAAATGG
1 TATGCTCACACGAGCTGTGAAATGG
*
37025833 GACTGCTCACACGAGCTGTG
1 TA-TGCTCACACGAGCTGTG
37025853 TGTTAGAATG
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
25 2 0.05
26 39 0.95
ACGTcount: A:0.25, C:0.21, G:0.30, T:0.24
Consensus pattern (25 bp):
TATGCTCACACGAGCTGTGAAATGG
Found at i:37027006 original size:10 final size:10
Alignment explanation
Indices: 37026982--37027025 Score: 52
Period size: 10 Copynumber: 4.4 Consensus size: 10
37026972 CCAAGCTCCA
*
37026982 TTCAGCTCAA
1 TTCAGCTCAT
* *
37026992 ATCAGCTCGT
1 TTCAGCTCAT
37027002 TTCAGCTCAT
1 TTCAGCTCAT
*
37027012 TTGAGCTCAT
1 TTCAGCTCAT
37027022 TTCA
1 TTCA
37027026 ATTTACTTCC
Statistics
Matches: 27, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
10 27 1.00
ACGTcount: A:0.23, C:0.27, G:0.14, T:0.36
Consensus pattern (10 bp):
TTCAGCTCAT
Found at i:37048494 original size:20 final size:20
Alignment explanation
Indices: 37048469--37048515 Score: 94
Period size: 20 Copynumber: 2.4 Consensus size: 20
37048459 GTAAAGTGCA
37048469 AAAGTTGAGTTCTAATAGCT
1 AAAGTTGAGTTCTAATAGCT
37048489 AAAGTTGAGTTCTAATAGCT
1 AAAGTTGAGTTCTAATAGCT
37048509 AAAGTTG
1 AAAGTTG
37048516 TTAAATAGTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.36, C:0.09, G:0.21, T:0.34
Consensus pattern (20 bp):
AAAGTTGAGTTCTAATAGCT
Found at i:37049417 original size:14 final size:14
Alignment explanation
Indices: 37049398--37049425 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
37049388 ATATGTATGT
37049398 GATTTGTATAATTG
1 GATTTGTATAATTG
37049412 GATTTGTATAATTG
1 GATTTGTATAATTG
37049426 CCAAGTATAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.29, C:0.00, G:0.21, T:0.50
Consensus pattern (14 bp):
GATTTGTATAATTG
Found at i:37049627 original size:25 final size:25
Alignment explanation
Indices: 37049558--37049627 Score: 70
Period size: 25 Copynumber: 2.8 Consensus size: 25
37049548 GCGAACACAC
* * *
37049558 CACAGCTCATATGAGCTTACCGATT
1 CACAGCTCGTATGAGCATACCGACT
* *
37049583 CACAGCTCGTCA-GAGTATACTGACT
1 CACAGCTCGT-ATGAGCATACCGACT
*
37049608 CATAGCTCGTATGAGCATAC
1 CACAGCTCGTATGAGCATAC
37049628 ATGTATATGA
Statistics
Matches: 36, Mismatches: 7, Indels: 4
0.77 0.15 0.09
Matches are distributed among these distances:
24 1 0.03
25 34 0.94
26 1 0.03
ACGTcount: A:0.29, C:0.27, G:0.19, T:0.26
Consensus pattern (25 bp):
CACAGCTCGTATGAGCATACCGACT
Found at i:37054306 original size:39 final size:39
Alignment explanation
Indices: 37054252--37054328 Score: 127
Period size: 39 Copynumber: 2.0 Consensus size: 39
37054242 AACAATACTT
* *
37054252 AAAACTACTCAAAGTCATTCCCCAACTCATAAATAAAAG
1 AAAACTACTCAAAGTCACTCCCCAACTCAAAAATAAAAG
*
37054291 AAAACTACTCAAAGTCCCTCCCCAACTCAAAAATAAAA
1 AAAACTACTCAAAGTCACTCCCCAACTCAAAAATAAAA
37054329 AGATAGTACT
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
39 35 1.00
ACGTcount: A:0.49, C:0.29, G:0.04, T:0.18
Consensus pattern (39 bp):
AAAACTACTCAAAGTCACTCCCCAACTCAAAAATAAAAG
Found at i:37059470 original size:23 final size:23
Alignment explanation
Indices: 37059438--37059482 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
37059428 TATAATGTAT
*
37059438 TATTTGAATTGA-AATGGTATAA
1 TATTTGAATTGACAATAGTATAA
37059460 TATTATGAATTGACAATAGTATA
1 TATT-TGAATTGACAATAGTATA
37059483 TGAAATGATT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 4 0.20
23 8 0.40
24 8 0.40
ACGTcount: A:0.42, C:0.02, G:0.16, T:0.40
Consensus pattern (23 bp):
TATTTGAATTGACAATAGTATAA
Found at i:37060931 original size:114 final size:114
Alignment explanation
Indices: 37060742--37061503 Score: 906
Period size: 114 Copynumber: 6.7 Consensus size: 114
37060732 TTGGTGGCAT
* * * *
37060742 TTATGG-AAAACGCCGCTAAAGGAGAGTATTAGAGGCGCTTTGTAAGAAACACCGTAAAATATCT
1 TTATGGAAAAACGCCGCTAAAGCACAGTATTAGAGGCGCTTTGTAAGAAACGCCGCAAAATATCT
*
37060806 TAACCAAAACGCAGCGTTTGGTCTTAATGTATATTAGAATTAGTGGCGC
66 TAACCAAAACGCAGCGTTTGGTCTTAATGTATATAAGAATTAGTGGCGC
* * * * *
37060855 TTGTGGAAAAACGACGCTATAGCACAGTATTAGCGGCG-TTT-TATAGAAAACGCTGCAAAATAT
1 TTATGGAAAAACGCCGCTAAAGCACAGTATTAGAGGCGCTTTGTA-AG-AAACGCCGCAAAATAT
* * * * *
37060918 CTTAACCAAAACGCATCATTTGGTCTTTAGGTATATAAGAATTAGTGGCGG
64 CTTAACCAAAACGCAGCGTTTGGTCTTAATGTATATAAGAATTAGTGGCGC
* * * * *
37060969 TTACGGAAAAATGCCGCTAAAGGAGAGTATTAGAGGCGCTTTGTAAGAAACGCCACAAAATATCT
1 TTATGGAAAAACGCCGCTAAAGCACAGTATTAGAGGCGCTTTGTAAGAAACGCCGCAAAATATCT
* *
37061034 TAACCAAAATGCAGCGTTTGGTCTTAATGTATATTAGAATTAGTGGCGC
66 TAACCAAAACGCAGCGTTTGGTCTTAATGTATATAAGAATTAGTGGCGC
* * *
37061083 TTGTGGAAAAACGCCGCTATAGCACAGTATTAGCGGCG-TTT-TATAGAAAACGCCGCAAAATAT
1 TTATGGAAAAACGCCGCTAAAGCACAGTATTAGAGGCGCTTTGTA-AG-AAACGCCGCAAAATAT
* * * *
37061146 CTTAACCAAAACGCATCGTTTGGTCTTGAGGTATATAAGAATTAGTGGCGG
64 CTTAACCAAAACGCAGCGTTTGGTCTTAATGTATATAAGAATTAGTGGCGC
* * *
37061197 TTATGGAAAAACGCCGCTAAATG-AAAGTATTAGAGGTGCTTTGTAAGAAACGCTGCAAAATATC
1 TTATGGAAAAACGCCGCTAAA-GCACAGTATTAGAGGCGCTTTGTAAGAAACGCCGCAAAATATC
* *
37061261 TTAACCAAAACGTAGCGTTTGGTCTTAATGTATATTAGAATTAGTGGCGC
65 TTAACCAAAACGCAGCGTTTGGTCTTAATGTATATAAGAATTAGTGGCGC
* * * * * * * * * *
37061311 TTGTGGAAAAACGCTGCTATAGCATAGTATTGGCGGCGTTTTGTATGAAATGCCGCAAGATATCT
1 TTATGGAAAAACGCCGCTAAAGCACAGTATTAGAGGCGCTTTGTAAGAAACGCCGCAAAATATCT
** * * * * *
37061376 TAACCAAAACGCATAGTTTGGTCTTGATGAATATAAAAATTACTGGCGG
66 TAACCAAAACGCAGCGTTTGGTCTTAATGTATATAAGAATTAGTGGCGC
* * * * * * *
37061425 TTACGAAAAAAGGCCGCTAAAACAGAGTATTAGAGGCGCTTTGTAAGAATCGCCGCAAAATATTT
1 TTATGGAAAAACGCCGCTAAAGCACAGTATTAGAGGCGCTTTGTAAGAAACGCCGCAAAATATCT
*
37061490 TAACTAAAACGCAG
66 TAACCAAAACGCAG
37061504 TTGGCGCTCA
Statistics
Matches: 541, Mismatches: 97, Indels: 21
0.82 0.15 0.03
Matches are distributed among these distances:
112 4 0.01
113 16 0.03
114 506 0.94
115 11 0.02
116 4 0.01
ACGTcount: A:0.35, C:0.16, G:0.23, T:0.27
Consensus pattern (114 bp):
TTATGGAAAAACGCCGCTAAAGCACAGTATTAGAGGCGCTTTGTAAGAAACGCCGCAAAATATCT
TAACCAAAACGCAGCGTTTGGTCTTAATGTATATAAGAATTAGTGGCGC
Found at i:37061052 original size:228 final size:227
Alignment explanation
Indices: 37060647--37061503 Score: 1186
Period size: 228 Copynumber: 3.8 Consensus size: 227
37060637 AATGCCATTA
* * * * * * * *
37060647 TATAGCACA--ATTAGCGGCG-TTTATTTGTAAGCGCTGCAAAAAATGTTAGCCAAAACGCATCG
1 TATAGCACAGTATTAGCGGCGTTTTA-TAGAAAACGCCGCAAAATATCTTAACCAAAACGCATCA
** ** * * * ** *
37060709 TTTATTCCCGAGGTATATTAGACTTGGTGGCATTTATGG-AAAACGCCGCTAAAGGAGAGTATTA
65 TTTGGTCTTGAGGTATATAAGAATTAGTGGCGGTTACGGAAAAACGCCGCTAAAGGAGAGTATTA
* *
37060773 GAGGCGCTTTGTAAGAAACACCGTAAAATATCTTAACCAAAACGCAGCGTTTGGTCTTAATGTAT
130 GAGGCGCTTTGTAAGAAACGCCGCAAAATATCTTAACCAAAACGCAGCGTTTGGTCTTAATGTAT
37060838 ATTAGAATTAGTGGCGCTTGTGGAAAAACGACGC
195 ATTAGAATTAGTGGCGCTTGTGGAAAAACG-CGC
*
37060872 TATAGCACAGTATTAGCGGCGTTTTATAGAAAACGCTGCAAAATATCTTAACCAAAACGCATCAT
1 TATAGCACAGTATTAGCGGCGTTTTATAGAAAACGCCGCAAAATATCTTAACCAAAACGCATCAT
* *
37060937 TTGGTCTTTAGGTATATAAGAATTAGTGGCGGTTACGGAAAAATGCCGCTAAAGGAGAGTATTAG
66 TTGGTCTTGAGGTATATAAGAATTAGTGGCGGTTACGGAAAAACGCCGCTAAAGGAGAGTATTAG
* *
37061002 AGGCGCTTTGTAAGAAACGCCACAAAATATCTTAACCAAAATGCAGCGTTTGGTCTTAATGTATA
131 AGGCGCTTTGTAAGAAACGCCGCAAAATATCTTAACCAAAACGCAGCGTTTGGTCTTAATGTATA
37061067 TTAGAATTAGTGGCGCTTGTGGAAAAACGCCGC
196 TTAGAATTAGTGGCGCTTGTGGAAAAACG-CGC
*
37061100 TATAGCACAGTATTAGCGGCGTTTTATAGAAAACGCCGCAAAATATCTTAACCAAAACGCATCGT
1 TATAGCACAGTATTAGCGGCGTTTTATAGAAAACGCCGCAAAATATCTTAACCAAAACGCATCAT
* * *
37061165 TTGGTCTTGAGGTATATAAGAATTAGTGGCGGTTATGGAAAAACGCCGCTAAATGAAAGTATTAG
66 TTGGTCTTGAGGTATATAAGAATTAGTGGCGGTTACGGAAAAACGCCGCTAAAGGAGAGTATTAG
* * *
37061230 AGGTGCTTTGTAAGAAACGCTGCAAAATATCTTAACCAAAACGTAGCGTTTGGTCTTAATGTATA
131 AGGCGCTTTGTAAGAAACGCCGCAAAATATCTTAACCAAAACGCAGCGTTTGGTCTTAATGTATA
37061295 TTAGAATTAGTGGCGCTTGTGGAAAAACGCTGC
196 TTAGAATTAGTGGCGCTTGTGGAAAAACGC-GC
* * * * *
37061328 TATAGCATAGTATTGGCGGCGTTTTGTATG-AAATGCCGCAAGATATCTTAACCAAAACGCAT-A
1 TATAGCACAGTATTAGCGGCGTTTTATA-GAAAACGCCGCAAAATATCTTAACCAAAACGCATCA
* * * * * * **
37061391 GTTTGGTCTTGATGAATATAAAAATTACTGGCGGTTACGAAAAAAGGCCGCTAAAACAGAGTATT
65 -TTTGGTCTTGAGGTATATAAGAATTAGTGGCGGTTACGGAAAAACGCCGCTAAAGGAGAGTATT
* * *
37061456 AGAGGCGCTTTGTAAGAATCGCCGCAAAATATTTTAACTAAAACGCAG
129 AGAGGCGCTTTGTAAGAAACGCCGCAAAATATCTTAACCAAAACGCAG
37061504 TTGGCGCTCA
Statistics
Matches: 567, Mismatches: 58, Indels: 11
0.89 0.09 0.02
Matches are distributed among these distances:
225 9 0.02
227 70 0.12
228 487 0.86
229 1 0.00
ACGTcount: A:0.34, C:0.16, G:0.23, T:0.27
Consensus pattern (227 bp):
TATAGCACAGTATTAGCGGCGTTTTATAGAAAACGCCGCAAAATATCTTAACCAAAACGCATCAT
TTGGTCTTGAGGTATATAAGAATTAGTGGCGGTTACGGAAAAACGCCGCTAAAGGAGAGTATTAG
AGGCGCTTTGTAAGAAACGCCGCAAAATATCTTAACCAAAACGCAGCGTTTGGTCTTAATGTATA
TTAGAATTAGTGGCGCTTGTGGAAAAACGCGC
Found at i:37061836 original size:13 final size:14
Alignment explanation
Indices: 37061808--37061878 Score: 63
Period size: 14 Copynumber: 5.1 Consensus size: 14
37061798 TTATGATGTA
* *
37061808 GGTTTAGTGTTTTG
1 GGTTTAGGGTTTAG
*
37061822 GGTTTAGGGTTTGG
1 GGTTTAGGGTTTAG
* *
37061836 GAGTTTTGGGTTTAA
1 G-GTTTAGGGTTTAG
*
37061851 GGTTTGGGGTTT-G
1 GGTTTAGGGTTTAG
*
37061864 GGTTTGGGGTTTAG
1 GGTTTAGGGTTTAG
37061878 G
1 G
37061879 TAACTTTAGT
Statistics
Matches: 48, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
13 12 0.25
14 25 0.52
15 11 0.23
ACGTcount: A:0.08, C:0.00, G:0.45, T:0.46
Consensus pattern (14 bp):
GGTTTAGGGTTTAG
Found at i:37061842 original size:22 final size:21
Alignment explanation
Indices: 37061816--37061875 Score: 86
Period size: 22 Copynumber: 2.9 Consensus size: 21
37061806 TAGGTTTAGT
37061816 GTTTTGGGTTTAGGGTTTGGG
1 GTTTTGGGTTTAGGGTTTGGG
*
37061837 AGTTTTGGGTTTAAGGTTTGGG
1 -GTTTTGGGTTTAGGGTTTGGG
*
37061859 G-TTTGGGTTTGGGGTTT
1 GTTTTGGGTTTAGGGTTT
37061876 AGGTAACTTT
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
20 14 0.40
21 1 0.03
22 20 0.57
ACGTcount: A:0.07, C:0.00, G:0.45, T:0.48
Consensus pattern (21 bp):
GTTTTGGGTTTAGGGTTTGGG
Found at i:37061848 original size:7 final size:7
Alignment explanation
Indices: 37061816--37061875 Score: 50
Period size: 7 Copynumber: 8.6 Consensus size: 7
37061806 TAGGTTTAGT
37061816 GTTTTGG
1 GTTTTGG
*
37061823 GTTTAGG
1 GTTTTGG
*
37061830 GTTTGGG
1 GTTTTGG
37061837 AGTTTTGG
1 -GTTTTGG
**
37061845 GTTTAAG
1 GTTTTGG
37061852 G-TTTGG
1 GTTTTGG
*
37061858 GGTTTGG
1 GTTTTGG
*
37061865 GTTTGGG
1 GTTTTGG
37061872 GTTT
1 GTTT
37061876 AGGTAACTTT
Statistics
Matches: 42, Mismatches: 9, Indels: 4
0.76 0.16 0.07
Matches are distributed among these distances:
6 4 0.10
7 32 0.76
8 6 0.14
ACGTcount: A:0.07, C:0.00, G:0.45, T:0.48
Consensus pattern (7 bp):
GTTTTGG
Found at i:37062428 original size:12 final size:12
Alignment explanation
Indices: 37062411--37062437 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
37062401 AAATTTTTTA
37062411 AATAATATTAAT
1 AATAATATTAAT
37062423 AATAATATTAAT
1 AATAATATTAAT
37062435 AAT
1 AAT
37062438 GTCATAATTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (12 bp):
AATAATATTAAT
Found at i:37065722 original size:21 final size:21
Alignment explanation
Indices: 37065696--37065766 Score: 106
Period size: 21 Copynumber: 3.4 Consensus size: 21
37065686 CTACAACTTA
*
37065696 AAGCAGAGGCGGCAGCGAGGG
1 AAGCAGAGGCTGCAGCGAGGG
* *
37065717 AAGCAGCGGCTGCAGCAAGGG
1 AAGCAGAGGCTGCAGCGAGGG
*
37065738 AAGCAGAGGCTGCAGCGAGAG
1 AAGCAGAGGCTGCAGCGAGGG
37065759 AAGCAGAG
1 AAGCAGAG
37065767 CAGAGCAAAA
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 44 1.00
ACGTcount: A:0.32, C:0.20, G:0.45, T:0.03
Consensus pattern (21 bp):
AAGCAGAGGCTGCAGCGAGGG
Found at i:37067906 original size:48 final size:48
Alignment explanation
Indices: 37067835--37068004 Score: 196
Period size: 48 Copynumber: 3.5 Consensus size: 48
37067825 GGTTGCATAT
* * *
37067835 GTGGCACGGACTATGTGTAGGCCACCAATATTCTTTTAAGATACAACG
1 GTGGCACGGACTATGTGCAGGCCACCAATATTCTGTTAAGATACAAAG
* *
37067883 GTGGCACGGACTGTGTGCAGGCCACCAATATTCTGTTAAGATACAAGG
1 GTGGCACGGACTATGTGCAGGCCACCAATATTCTGTTAAGATACAAAG
* * * * ** *
37067931 GTGGCACGGACTATGTACAGGCCATCAAGAGTCTGTTATTACACAAAG
1 GTGGCACGGACTATGTGCAGGCCACCAATATTCTGTTAAGATACAAAG
* * * *
37067979 GTGGTACGGACTGTATGTAGGCCACC
1 GTGGCACGGACTATGTGCAGGCCACC
37068005 GAAAAATCTG
Statistics
Matches: 103, Mismatches: 19, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
48 103 1.00
ACGTcount: A:0.28, C:0.21, G:0.27, T:0.24
Consensus pattern (48 bp):
GTGGCACGGACTATGTGCAGGCCACCAATATTCTGTTAAGATACAAAG
Found at i:37076045 original size:21 final size:22
Alignment explanation
Indices: 37076020--37076067 Score: 73
Period size: 21 Copynumber: 2.3 Consensus size: 22
37076010 GAAGATTTTG
37076020 GATTACCACT-CTATCTTTGGT
1 GATTACCACTCCTATCTTTGGT
*
37076041 GATTA-CATTCCTATCTTTGGT
1 GATTACCACTCCTATCTTTGGT
37076062 GATTAC
1 GATTAC
37076068 ATTCATCATA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
20 3 0.12
21 21 0.88
ACGTcount: A:0.21, C:0.21, G:0.15, T:0.44
Consensus pattern (22 bp):
GATTACCACTCCTATCTTTGGT
Found at i:37076068 original size:21 final size:21
Alignment explanation
Indices: 37076030--37076071 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
37076020 GATTACCACT
37076030 CTATCTTTGGTGATTACATTC
1 CTATCTTTGGTGATTACATTC
37076051 CTATCTTTGGTGATTACATTC
1 CTATCTTTGGTGATTACATTC
37076072 ATCATATCGG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.19, C:0.19, G:0.14, T:0.48
Consensus pattern (21 bp):
CTATCTTTGGTGATTACATTC
Found at i:37081684 original size:10 final size:10
Alignment explanation
Indices: 37081669--37081719 Score: 52
Period size: 10 Copynumber: 5.3 Consensus size: 10
37081659 AAATGCCAAA
37081669 TTTTATAATT
1 TTTTATAATT
37081679 TTTTATAA-T
1 TTTTATAATT
* *
37081688 TTTAATTA-T
1 TTTTATAATT
37081697 TTTTATAATT
1 TTTTATAATT
* *
37081707 TTTAATAGTT
1 TTTTATAATT
37081717 TTT
1 TTT
37081720 GTTCTGTTCA
Statistics
Matches: 34, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
9 14 0.41
10 20 0.59
ACGTcount: A:0.29, C:0.00, G:0.02, T:0.69
Consensus pattern (10 bp):
TTTTATAATT
Found at i:37081690 original size:9 final size:9
Alignment explanation
Indices: 37081669--37081710 Score: 57
Period size: 9 Copynumber: 4.6 Consensus size: 9
37081659 AAATGCCAAA
37081669 TTTTATAATT
1 TTTTATAA-T
37081679 TTTTATAAT
1 TTTTATAAT
* *
37081688 TTTAATTAT
1 TTTTATAAT
37081697 TTTTATAAT
1 TTTTATAAT
37081706 TTTTA
1 TTTTA
37081711 ATAGTTTTTG
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
9 20 0.71
10 8 0.29
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (9 bp):
TTTTATAAT
Found at i:37081690 original size:18 final size:19
Alignment explanation
Indices: 37081667--37081719 Score: 67
Period size: 18 Copynumber: 2.9 Consensus size: 19
37081657 AAAAATGCCA
37081667 AATTTTATAAT-TTTTTAT
1 AATTTTATAATATTTTTAT
*
37081685 AATTTTA-ATTATTTTTAT
1 AATTTTATAATATTTTTAT
37081703 AATTTT-TAATAGTTTTT
1 AATTTTATAATA-TTTTT
37081720 GTTCTGTTCA
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
17 2 0.07
18 23 0.77
19 5 0.17
ACGTcount: A:0.32, C:0.00, G:0.02, T:0.66
Consensus pattern (19 bp):
AATTTTATAATATTTTTAT
Found at i:37083710 original size:38 final size:38
Alignment explanation
Indices: 37083617--37083694 Score: 156
Period size: 38 Copynumber: 2.1 Consensus size: 38
37083607 TCATTTTGGC
37083617 TTTGATCATTCACAATTTTTTCTTTTCCTAATTTCAAG
1 TTTGATCATTCACAATTTTTTCTTTTCCTAATTTCAAG
37083655 TTTGATCATTCACAATTTTTTCTTTTCCTAATTTCAAG
1 TTTGATCATTCACAATTTTTTCTTTTCCTAATTTCAAG
37083693 TT
1 TT
37083695 CTGGTTATTG
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 40 1.00
ACGTcount: A:0.23, C:0.18, G:0.05, T:0.54
Consensus pattern (38 bp):
TTTGATCATTCACAATTTTTTCTTTTCCTAATTTCAAG
Found at i:37085026 original size:18 final size:18
Alignment explanation
Indices: 37084976--37085026 Score: 59
Period size: 18 Copynumber: 2.8 Consensus size: 18
37084966 AATTTATAAA
37084976 AATAAAAATAATAAATTTT
1 AATAAAAAT-ATAAATTTT
* *
37084995 -AGAAAATTATTAAATTTT
1 AATAAAAATA-TAAATTTT
37085013 AATAAAAATATAAA
1 AATAAAAATATAAA
37085027 AAATAAAAAT
Statistics
Matches: 26, Mismatches: 4, Indels: 5
0.74 0.11 0.14
Matches are distributed among these distances:
17 1 0.04
18 18 0.69
19 7 0.27
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (18 bp):
AATAAAAATATAAATTTT
Found at i:37085046 original size:45 final size:45
Alignment explanation
Indices: 37084979--37085083 Score: 108
Period size: 46 Copynumber: 2.3 Consensus size: 45
37084969 TTATAAAAAT
*
37084979 AAAAATAATAAATTTTAGAAAATT-ATTAAATTTTAATAAAAAT-ATA
1 AAAAATAA-AAATTATAGAAAATTGATT--ATTTTAATAAAAATCATA
* * *
37085025 AAAAATAAAAATTAATA-AAAATTGGATTTTTTTTATAAAAATCGTA
1 AAAAATAAAAATT-ATAGAAAATT-GATTATTTTAATAAAAATCATA
37085071 AAAAATAAAAATT
1 AAAAATAAAAATT
37085084 GTAAAATTTT
Statistics
Matches: 51, Mismatches: 4, Indels: 8
0.81 0.06 0.13
Matches are distributed among these distances:
45 23 0.45
46 25 0.49
47 3 0.06
ACGTcount: A:0.60, C:0.01, G:0.04, T:0.35
Consensus pattern (45 bp):
AAAAATAAAAATTATAGAAAATTGATTATTTTAATAAAAATCATA
Found at i:37085080 original size:16 final size:16
Alignment explanation
Indices: 37085059--37085089 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
37085049 GATTTTTTTT
37085059 ATAAAAATCGTAAAAA
1 ATAAAAATCGTAAAAA
*
37085075 ATAAAAATTGTAAAA
1 ATAAAAATCGTAAAA
37085090 TTTTATAAAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.68, C:0.03, G:0.06, T:0.23
Consensus pattern (16 bp):
ATAAAAATCGTAAAAA
Found at i:37085368 original size:19 final size:18
Alignment explanation
Indices: 37085336--37085402 Score: 59
Period size: 19 Copynumber: 3.7 Consensus size: 18
37085326 ATTCTATATA
**
37085336 TTTTATAATTTTTTAAGAT
1 TTTTATAAAATTTTAA-AT
37085355 TTTTATAAAATTTTACAAT
1 TTTTATAAAATTTTA-AAT
*
37085374 TTTT-T-ATATTTT-AAT
1 TTTTATAAAATTTTAAAT
37085389 TTTTATTAAAATTT
1 TTTTA-TAAAATTT
37085403 AATAATATTT
Statistics
Matches: 40, Mismatches: 4, Indels: 9
0.75 0.08 0.17
Matches are distributed among these distances:
15 7 0.17
17 7 0.17
18 6 0.15
19 19 0.47
20 1 0.03
ACGTcount: A:0.34, C:0.01, G:0.01, T:0.63
Consensus pattern (18 bp):
TTTTATAAAATTTTAAAT
Found at i:37087213 original size:39 final size:39
Alignment explanation
Indices: 37087159--37087237 Score: 149
Period size: 39 Copynumber: 2.0 Consensus size: 39
37087149 GATATGATTA
*
37087159 TGTAATCTTAGAGTTCTAATTGTATACAGCTTTTAATTG
1 TGTAATCTTAGAGTTCTAATTGTATACAACTTTTAATTG
37087198 TGTAATCTTAGAGTTCTAATTGTATACAACTTTTAATTG
1 TGTAATCTTAGAGTTCTAATTGTATACAACTTTTAATTG
37087237 T
1 T
37087238 ATCCATTGAT
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
39 39 1.00
ACGTcount: A:0.29, C:0.10, G:0.14, T:0.47
Consensus pattern (39 bp):
TGTAATCTTAGAGTTCTAATTGTATACAACTTTTAATTG
Found at i:37087559 original size:48 final size:49
Alignment explanation
Indices: 37087468--37087560 Score: 152
Period size: 48 Copynumber: 1.9 Consensus size: 49
37087458 GGAATTCTGC
* **
37087468 TGAATCCTTTATCGTTGCGAGATTAGGCTAACTTAGGTGTTTTTACTGT
1 TGAATCCTTTATCATTGCGAGATTAGGCTAACTTAGGCATTTTTACTGT
37087517 TGAATCCTTTATCATTGCGAG-TTAGGCTAACTTAGGCATTTTTA
1 TGAATCCTTTATCATTGCGAGATTAGGCTAACTTAGGCATTTTTA
37087561 AGCAAAGAAA
Statistics
Matches: 41, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
48 21 0.51
49 20 0.49
ACGTcount: A:0.23, C:0.15, G:0.20, T:0.42
Consensus pattern (49 bp):
TGAATCCTTTATCATTGCGAGATTAGGCTAACTTAGGCATTTTTACTGT
Found at i:37092386 original size:50 final size:50
Alignment explanation
Indices: 37092326--37092568 Score: 238
Period size: 50 Copynumber: 4.8 Consensus size: 50
37092316 TGATGGTCAT
* * * *
37092326 GTGTGTAGTACTATGTGTAGGCTACTACGTGTACCGGAATGAAAGGTCGC
1 GTGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGAATGAATGATCAC
* * * * **
37092376 ATGTGTAGTACTATGTTCAGGCTACTATGCGTACCGG-ATAGCTTCGATCAC
1 GTGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGAAT-GAAT-GATCAC
* ** * *
37092427 GTGTGTAGTACTATATGCAGGCTACTACGTGTATTGGATATTAATGGTCAC
1 GTGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGA-ATGAATGATCAC
* * * * **
37092478 GTGTGTAGTACTATGTGCAGGCTATTACGTGAACCGAAAAGTTTGATCAC
1 GTGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGAATGAATGATCAC
* *
37092528 GTGTGTAGTACTATGTGAAGGCTACTACGTGTATC-GAATGA
1 GTGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGAATGA
37092569 TAATAGTTAA
Statistics
Matches: 150, Mismatches: 39, Indels: 9
0.76 0.20 0.05
Matches are distributed among these distances:
49 5 0.03
50 71 0.47
51 71 0.47
52 1 0.01
53 2 0.01
ACGTcount: A:0.26, C:0.16, G:0.27, T:0.31
Consensus pattern (50 bp):
GTGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGAATGAATGATCAC
Found at i:37092448 original size:51 final size:50
Alignment explanation
Indices: 37092326--37092560 Score: 240
Period size: 51 Copynumber: 4.7 Consensus size: 50
37092316 TGATGGTCAT
* *** * *
37092326 GTGTGTAGTACTATGTGTAGGCTACTACGTGTACCGGA-ATGAAAGGTCGC
1 GTGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGATA-GTTTGATCAC
* * * * *
37092376 ATGTGTAGTACTATGTTCAGGCTACTATGCGTACCGGATAGCTTCGATCAC
1 GTGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGATAG-TTTGATCAC
* ** *
37092427 GTGTGTAGTACTATATGCAGGCTACTACGTGTATTGGATA-TTAATGGTCAC
1 GTGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGATAGTT--TGATCAC
* * * *
37092478 GTGTGTAGTACTATGTGCAGGCTATTACGTGAACCGAAAAGTTTGATCAC
1 GTGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGATAGTTTGATCAC
*
37092528 GTGTGTAGTACTATGTGAAGGCTACTACGTGTA
1 GTGTGTAGTACTATGTGCAGGCTACTACGTGTA
37092561 TCGAATGATA
Statistics
Matches: 150, Mismatches: 30, Indels: 10
0.79 0.16 0.05
Matches are distributed among these distances:
49 2 0.01
50 70 0.47
51 76 0.51
52 2 0.01
ACGTcount: A:0.25, C:0.16, G:0.27, T:0.31
Consensus pattern (50 bp):
GTGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGATAGTTTGATCAC
Found at i:37092449 original size:101 final size:100
Alignment explanation
Indices: 37092326--37092568 Score: 308
Period size: 101 Copynumber: 2.4 Consensus size: 100
37092316 TGATGGTCAT
* * *
37092326 GTGTGTAGTACTATGTGTAGGCTACTACGTGTACCGGAATGAAAGGTCGCATGTGTAGTACTATG
1 GTGTGTAGTACTATGTGAAGGCTACTACGTGTATCGGAATGAAAGGTCACATGTGTAGTACTATG
* * * * *
37092391 TTCAGGCTACTATGCGTACCGGATAGCTTCGATCAC
66 TGCAGGCTACTACGCGAACCGAAAAG-TTCGATCAC
* * * * * *
37092427 GTGTGTAGTACTATATGCAGGCTACTACGTGTATTGGATATTAATGGTCACGTGTGTAGTACTAT
1 GTGTGTAGTACTATGTGAAGGCTACTACGTGTATCGGA-ATGAAAGGTCACATGTGTAGTACTAT
* * *
37092492 GTGCAGGCTATTACGTGAACCGAAAAGTTTGATCAC
65 GTGCAGGCTACTACGCGAACCGAAAAGTTCGATCAC
37092528 GTGTGTAGTACTATGTGAAGGCTACTACGTGTATC-GAATGA
1 GTGTGTAGTACTATGTGAAGGCTACTACGTGTATCGGAATGA
37092569 TAATAGTTAA
Statistics
Matches: 121, Mismatches: 20, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
99 3 0.02
100 2 0.02
101 74 0.61
102 42 0.35
ACGTcount: A:0.26, C:0.16, G:0.27, T:0.31
Consensus pattern (100 bp):
GTGTGTAGTACTATGTGAAGGCTACTACGTGTATCGGAATGAAAGGTCACATGTGTAGTACTATG
TGCAGGCTACTACGCGAACCGAAAAGTTCGATCAC
Found at i:37094011 original size:21 final size:21
Alignment explanation
Indices: 37093985--37094037 Score: 97
Period size: 21 Copynumber: 2.5 Consensus size: 21
37093975 AAATTTGTAC
37093985 TATCTTTGTGGCTAATTTTGT
1 TATCTTTGTGGCTAATTTTGT
37094006 TATCTTTGTGGCTAATTTTGT
1 TATCTTTGTGGCTAATTTTGT
*
37094027 TAGCTTTGTGG
1 TATCTTTGTGG
37094038 GAGATGAATG
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.13, C:0.09, G:0.23, T:0.55
Consensus pattern (21 bp):
TATCTTTGTGGCTAATTTTGT
Found at i:37095828 original size:14 final size:14
Alignment explanation
Indices: 37095809--37095839 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
37095799 TTTGATTGGT
*
37095809 GGAAAATATTTTCC
1 GGAAAATATTTTAC
37095823 GGAAAATATTTTAC
1 GGAAAATATTTTAC
37095837 GGA
1 GGA
37095840 TTTTCCAGTG
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:0.39, C:0.10, G:0.19, T:0.32
Consensus pattern (14 bp):
GGAAAATATTTTAC
Found at i:37098455 original size:26 final size:26
Alignment explanation
Indices: 37098419--37098476 Score: 107
Period size: 26 Copynumber: 2.2 Consensus size: 26
37098409 CATCCTCAAA
37098419 CTATAATCTAGATATTAAATTGGTCT
1 CTATAATCTAGATATTAAATTGGTCT
*
37098445 CTATAATCTAGATTTTAAATTGGTCT
1 CTATAATCTAGATATTAAATTGGTCT
37098471 CTATAA
1 CTATAA
37098477 ATTTTGATAT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 31 1.00
ACGTcount: A:0.34, C:0.12, G:0.10, T:0.43
Consensus pattern (26 bp):
CTATAATCTAGATATTAAATTGGTCT
Found at i:37098839 original size:20 final size:20
Alignment explanation
Indices: 37098814--37098853 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
37098804 ATTTTTTTCC
*
37098814 AGTAAATCATTTTACAGAAA
1 AGTAAAACATTTTACAGAAA
*
37098834 AGTAAAACATTTTCCAGAAA
1 AGTAAAACATTTTACAGAAA
37098854 TCATTTTACG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.50, C:0.12, G:0.10, T:0.28
Consensus pattern (20 bp):
AGTAAAACATTTTACAGAAA
Found at i:37098860 original size:14 final size:14
Alignment explanation
Indices: 37098837--37098876 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
37098827 ACAGAAAAGT
*
37098837 AAAACATTTTCCAG
1 AAAACATTTTACAG
* *
37098851 AAATCATTTTACGG
1 AAAACATTTTACAG
37098865 AAAACATTTTAC
1 AAAACATTTTAC
37098877 TGGCAATCAA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.42, C:0.17, G:0.07, T:0.33
Consensus pattern (14 bp):
AAAACATTTTACAG
Found at i:37102547 original size:44 final size:43
Alignment explanation
Indices: 37102440--37102566 Score: 118
Period size: 43 Copynumber: 2.9 Consensus size: 43
37102430 TCGTACAATG
* * *
37102440 CCAACGTCCCAGACGTGGTCTTACATGTAATTACATAACGATG
1 CCAACGTCCCAGACGTGGTCTTACACGTAATCACATAACGATC
* * * *
37102483 CC-ACTGTCCCAGATAG-GGTCTTATACGTAAGTCACA-AGTCGCTC
1 CCAAC-GTCCCAGA-CGTGGTCTTACACGTAA-TCACATA-ACGATC
37102527 CCAACGTCCCAGACGTGGTCTTACACGATAA-CACATAACG
1 CCAACGTCCCAGACGTGGTCTTACACG-TAATCACATAACG
37102567 TAATCCTATG
Statistics
Matches: 66, Mismatches: 10, Indels: 16
0.72 0.11 0.17
Matches are distributed among these distances:
42 2 0.03
43 30 0.45
44 29 0.44
45 5 0.08
ACGTcount: A:0.29, C:0.29, G:0.19, T:0.23
Consensus pattern (43 bp):
CCAACGTCCCAGACGTGGTCTTACACGTAATCACATAACGATC
Found at i:37104193 original size:25 final size:25
Alignment explanation
Indices: 37104152--37104217 Score: 80
Period size: 25 Copynumber: 2.6 Consensus size: 25
37104142 ATGCTTATTT
*
37104152 GAGCTA-AAGATCTGTATGCTCTGAC
1 GAGCTATAA-ATCGGTATGCTCTGAC
* * *
37104177 GAGTTATAAATTGGTATGCTCTTAC
1 GAGCTATAAATCGGTATGCTCTGAC
37104202 GAGCTATAAATCGGTA
1 GAGCTATAAATCGGTA
37104218 ACCCTAATGA
Statistics
Matches: 34, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
25 32 0.94
26 2 0.06
ACGTcount: A:0.30, C:0.15, G:0.23, T:0.32
Consensus pattern (25 bp):
GAGCTATAAATCGGTATGCTCTGAC
Found at i:37110619 original size:12 final size:12
Alignment explanation
Indices: 37110602--37110634 Score: 52
Period size: 11 Copynumber: 2.9 Consensus size: 12
37110592 CGGCCCGCCC
37110602 ATATTAATTTTT
1 ATATTAATTTTT
37110614 ATATT-ATTTTT
1 ATATTAATTTTT
37110625 ATA-TAATTTT
1 ATATTAATTTT
37110635 CAAATATATA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
10 1 0.05
11 14 0.70
12 5 0.25
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (12 bp):
ATATTAATTTTT
Found at i:37110792 original size:30 final size:30
Alignment explanation
Indices: 37110758--37110820 Score: 117
Period size: 30 Copynumber: 2.1 Consensus size: 30
37110748 ACTTAACAAG
37110758 CAAATGCCTCTAAAATAATAACAAAATTAA
1 CAAATGCCTCTAAAATAATAACAAAATTAA
*
37110788 CAAATGCCTTTAAAATAATAACAAAATTAA
1 CAAATGCCTCTAAAATAATAACAAAATTAA
37110818 CAA
1 CAA
37110821 TAAAATAAGT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.57, C:0.16, G:0.03, T:0.24
Consensus pattern (30 bp):
CAAATGCCTCTAAAATAATAACAAAATTAA
Found at i:37110875 original size:22 final size:22
Alignment explanation
Indices: 37110850--37110892 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
37110840 TATCCAAACA
37110850 ATAATAATAAAATAGTAGCAAC
1 ATAATAATAAAATAGTAGCAAC
* *
37110872 ATAATAGTAAAATGGTAGCAA
1 ATAATAATAAAATAGTAGCAA
37110893 AATAGGGAGA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.56, C:0.07, G:0.14, T:0.23
Consensus pattern (22 bp):
ATAATAATAAAATAGTAGCAAC
Found at i:37112175 original size:28 final size:27
Alignment explanation
Indices: 37112124--37112204 Score: 81
Period size: 28 Copynumber: 2.8 Consensus size: 27
37112114 TTTTCTAAAT
37112124 AAATATAAAAATTATTATAAAATTATA
1 AAATATAAAAATTATTATAAAATTATA
* *
37112151 AAATATAGAAATTTATTTTAAAATTATTA
1 AAATATA-AAAATTATTATAAAATTA-TA
* *
37112180 ATAATGGTAAGAAATTATTAGAAAA
1 A-AAT-ATAA-AAATTATTATAAAA
37112205 AATTTAAAAA
Statistics
Matches: 43, Mismatches: 6, Indels: 6
0.78 0.11 0.11
Matches are distributed among these distances:
27 7 0.16
28 16 0.37
29 3 0.07
30 4 0.09
31 13 0.30
ACGTcount: A:0.57, C:0.00, G:0.06, T:0.37
Consensus pattern (27 bp):
AAATATAAAAATTATTATAAAATTATA
Found at i:37112251 original size:23 final size:23
Alignment explanation
Indices: 37112225--37112270 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
37112215 ATTAATTTCT
*
37112225 TATA-ATTCTTAATAATTTTTATA
1 TATATATT-TTAATAAATTTTATA
*
37112248 TATATATTTTTATAAATTTTATA
1 TATATATTTTAATAAATTTTATA
37112271 ACAATTTAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 17 0.85
24 3 0.15
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (23 bp):
TATATATTTTAATAAATTTTATA
Found at i:37114169 original size:11 final size:11
Alignment explanation
Indices: 37114155--37114184 Score: 51
Period size: 12 Copynumber: 2.6 Consensus size: 11
37114145 AAATGCCTCT
37114155 AAAATAATAAC
1 AAAATAATAAC
37114166 AAAATTAATAAC
1 AAAA-TAATAAC
37114178 AAAATAA
1 AAAATAA
37114185 GTTTTATACA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
11 7 0.39
12 11 0.61
ACGTcount: A:0.73, C:0.07, G:0.00, T:0.20
Consensus pattern (11 bp):
AAAATAATAAC
Found at i:37114231 original size:22 final size:22
Alignment explanation
Indices: 37114206--37114248 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
37114196 TATCCAAACA
37114206 ATAACAATAAAATAGTAGCAAT
1 ATAACAATAAAATAGTAGCAAT
* * *
37114228 ATAATAGTAAAATGGTAGCAA
1 ATAACAATAAAATAGTAGCAA
37114249 AATAGGGAGA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.56, C:0.07, G:0.14, T:0.23
Consensus pattern (22 bp):
ATAACAATAAAATAGTAGCAAT
Found at i:37119179 original size:45 final size:45
Alignment explanation
Indices: 37119115--37119208 Score: 161
Period size: 45 Copynumber: 2.1 Consensus size: 45
37119105 AACAGATACT
* *
37119115 CGGTGGATTCAGCACATAGCAACCACCTTATTAATCAATGATGTC
1 CGGTGGAATCAGCACATAGCAACCACCTTACTAATCAATGATGTC
*
37119160 CGGTGGAATCAGCACATAGCAACCACCTTACTAATCAATGATGTT
1 CGGTGGAATCAGCACATAGCAACCACCTTACTAATCAATGATGTC
37119205 CGGT
1 CGGT
37119209 TCGCATGGTA
Statistics
Matches: 46, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
45 46 1.00
ACGTcount: A:0.31, C:0.24, G:0.19, T:0.26
Consensus pattern (45 bp):
CGGTGGAATCAGCACATAGCAACCACCTTACTAATCAATGATGTC
Found at i:37119274 original size:51 final size:49
Alignment explanation
Indices: 37119216--37119396 Score: 186
Period size: 51 Copynumber: 3.6 Consensus size: 49
37119206 GGTTCGCATG
*
37119216 GTAGCCTGCACATAGTACTACACATGTGACCATTACCATCTGATACACATA
1 GTAGCCTGCACATAGTACTACACACGTGACCA-TACCATCTG-TACACATA
* * *
37119267 GTAGCCTGCACATAGTACTACACACGTGATCGAAACTATCCTGTA-AGCATA
1 GTAGCCTGCACATAGTACTACACACGTGA-CCATACCAT-CTGTACA-CATA
* * * * * *
37119318 GTAGCCTACACATAGTACTACACATGCGACC-TATCATTCCGGTACACGTA
1 GTAGCCTGCACATAGTACTACACACGTGACCATACCA-T-CTGTACACATA
*
37119368 GTGGCCTGCACATAGTACTACACACGTGA
1 GTAGCCTGCACATAGTACTACACACGTGA
37119397 TCATCACTTT
Statistics
Matches: 108, Mismatches: 17, Indels: 11
0.79 0.12 0.08
Matches are distributed among these distances:
49 2 0.02
50 36 0.33
51 65 0.60
52 5 0.05
ACGTcount: A:0.31, C:0.28, G:0.17, T:0.24
Consensus pattern (49 bp):
GTAGCCTGCACATAGTACTACACACGTGACCATACCATCTGTACACATA
Found at i:37119430 original size:101 final size:101
Alignment explanation
Indices: 37119211--37119398 Score: 279
Period size: 101 Copynumber: 1.9 Consensus size: 101
37119201 TGTTCGGTTC
* * * *
37119211 GCATGGTAGCCTGCACATAGTACTACACATGTGACCATTACCATCTGATACACATAGTAGCCTGC
1 GCATAGTAGCCTACACATAGTACTACACATGCGACCA-TACCATCCGATACACATAGTAGCCTGC
37119276 ACATAGTACTACACACGTGATCGAAACTATCCTGTAA
65 ACATAGTACTACACACGTGATCGAAACTATCCTGTAA
* * * *
37119313 GCATAGTAGCCTACACATAGTACTACACATGCGACC-TATCATTCCGGTACACGTAGTGGCCTGC
1 GCATAGTAGCCTACACATAGTACTACACATGCGACCATACCA-TCCGATACACATAGTAGCCTGC
37119377 ACATAGTACTACACACGTGATC
65 ACATAGTACTACACACGTGATC
37119399 ATCACTTTCA
Statistics
Matches: 77, Mismatches: 8, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
100 4 0.05
101 40 0.52
102 33 0.43
ACGTcount: A:0.31, C:0.28, G:0.18, T:0.24
Consensus pattern (101 bp):
GCATAGTAGCCTACACATAGTACTACACATGCGACCATACCATCCGATACACATAGTAGCCTGCA
CATAGTACTACACACGTGATCGAAACTATCCTGTAA
Found at i:37122425 original size:84 final size:84
Alignment explanation
Indices: 37122268--37122436 Score: 212
Period size: 84 Copynumber: 2.0 Consensus size: 84
37122258 CATCAGCTTG
* * ** * * *
37122268 AGATATAATAAATTCTGCAACCATTAAGACACTTTAACCTTGCTCTTAATTTCGGCTGGAACTAT
1 AGATATAATAAATTCGGCAACCACTAAGACACAGTAACCTTCCTATTAATTTCGGCTGGAACTAG
37122333 GACACATTAAATAGATGTA
66 GACACATTAAATAGATGTA
* * * **
37122352 AGATTTAATGAATTCGGCAGCCACTAAGACACAGTAACCTTCCTATTAATTTTTGCTGGAACTAG
1 AGATATAATAAATTCGGCAACCACTAAGACACAGTAACCTTCCTATTAATTTCGGCTGGAACTAG
* *
37122417 GACTCATTAAATGGATGTA
66 GACACATTAAATAGATGTA
37122436 A
1 A
37122437 TAAGCTGGAC
Statistics
Matches: 71, Mismatches: 14, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
84 71 1.00
ACGTcount: A:0.36, C:0.18, G:0.15, T:0.31
Consensus pattern (84 bp):
AGATATAATAAATTCGGCAACCACTAAGACACAGTAACCTTCCTATTAATTTCGGCTGGAACTAG
GACACATTAAATAGATGTA
Found at i:37122655 original size:20 final size:21
Alignment explanation
Indices: 37122630--37122671 Score: 77
Period size: 20 Copynumber: 2.0 Consensus size: 21
37122620 AATAAAAAGA
37122630 TGGAAACGAGCTC-ATTGAGC
1 TGGAAACGAGCTCAATTGAGC
37122650 TGGAAACGAGCTCAATTGAGC
1 TGGAAACGAGCTCAATTGAGC
37122671 T
1 T
37122672 CAACAAGCTG
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 13 0.62
21 8 0.38
ACGTcount: A:0.31, C:0.19, G:0.29, T:0.21
Consensus pattern (21 bp):
TGGAAACGAGCTCAATTGAGC
Found at i:37123703 original size:23 final size:23
Alignment explanation
Indices: 37123677--37123720 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
37123667 AAAGCCATTA
37123677 TGGCATATTCTATGATGCCTTCG
1 TGGCATATTCTATGATGCCTTCG
* * *
37123700 TGGCGTATTTTGTGATGCCTT
1 TGGCATATTCTATGATGCCTT
37123721 TATGGTGCAT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.14, C:0.18, G:0.25, T:0.43
Consensus pattern (23 bp):
TGGCATATTCTATGATGCCTTCG
Found at i:37125268 original size:32 final size:32
Alignment explanation
Indices: 37125224--37125604 Score: 440
Period size: 32 Copynumber: 11.9 Consensus size: 32
37125214 ATATGTTTTA
*
37125224 TATATTGTCGAATTGAATTGTATATGTATACT
1 TATATTGCCGAATTGAATTGTATATGTATACT
* * *
37125256 TATATTGCCGAATTAAATTGTATAGGTATACA
1 TATATTGCCGAATTGAATTGTATATGTATACT
** *
37125288 CCTATTGCCGAATTGAATTGCATATGTATACT
1 TATATTGCCGAATTGAATTGTATATGTATACT
* *
37125320 TATATTGGCGAATTGAATTGTGTATGTATACT
1 TATATTGCCGAATTGAATTGTATATGTATACT
* *
37125352 TATATTG-CGAAATTGAATTGTATAGGTATACA
1 TATATTGCCG-AATTGAATTGTATATGTATACT
**
37125384 CCTATTGCCGAATTGAATTGTATATGTATACT
1 TATATTGCCGAATTGAATTGTATATGTATACT
** * *
37125416 TATATTGTTGAATTGAATTGTATAGGTATACA
1 TATATTGCCGAATTGAATTGTATATGTATACT
** * *
37125448 CCTATTGTCGAATTGAATTGTGTATGTATACT
1 TATATTGCCGAATTGAATTGTATATGTATACT
* *
37125480 TATATTGCCGAATTGAATTGTATAGGTATACA
1 TATATTGCCGAATTGAATTGTATATGTATACT
** *
37125512 CCTATTGCCGAATTGAATTGTGTATGTATACT
1 TATATTGCCGAATTGAATTGTATATGTATACT
* * *
37125544 TATATTGCCGAATTGAATTGCATAGGTATACA
1 TATATTGCCGAATTGAATTGTATATGTATACT
** * * *
37125576 CCTATTACCTAATTGATTTGTATATGTAT
1 TATATTGCCGAATTGAATTGTATATGTAT
37125605 TTATATATTG
Statistics
Matches: 289, Mismatches: 58, Indels: 4
0.82 0.17 0.01
Matches are distributed among these distances:
31 2 0.01
32 285 0.99
33 2 0.01
ACGTcount: A:0.31, C:0.11, G:0.17, T:0.41
Consensus pattern (32 bp):
TATATTGCCGAATTGAATTGTATATGTATACT
Found at i:37125332 original size:96 final size:96
Alignment explanation
Indices: 37125224--37125604 Score: 521
Period size: 96 Copynumber: 4.0 Consensus size: 96
37125214 ATATGTTTTA
*
37125224 TATATTGTCGAATTGAATTGTATATGTATACTTATATTGCCGAATTAAATTGTATAGGTATACAC
1 TATATTGTCGAATTGAATTGTATATGTATACTTATATTGCCGAATTGAATTGTATAGGTATACAC
*
37125289 CTATTGCCGAATTGAATTGCATATGTATACT
66 CTATTGCCGAATTGAATTGTATATGTATACT
* *
37125320 TATATTGGCGAATTGAATTGTGTATGTATACTTATATTG-CGAAATTGAATTGTATAGGTATACA
1 TATATTGTCGAATTGAATTGTATATGTATACTTATATTGCCG-AATTGAATTGTATAGGTATACA
37125384 CCTATTGCCGAATTGAATTGTATATGTATACT
65 CCTATTGCCGAATTGAATTGTATATGTATACT
* * *** * * * **
37125416 TATATTGTTGAATTGAATTGTATAGGTATACACCTATTGTCGAATTGAATTGTGTATGTATACTT
1 TATATTGTCGAATTGAATTGTATATGTATACTTATATTGCCGAATTGAATTGTATAGGTATACAC
* * *
37125481 ATATTGCCGAATTGAATTGTATAGGTATACA
66 CTATTGCCGAATTGAATTGTATATGTATACT
** * * *
37125512 CCTATTGCCGAATTGAATTGTGTATGTATACTTATATTGCCGAATTGAATTGCATAGGTATACAC
1 TATATTGTCGAATTGAATTGTATATGTATACTTATATTGCCGAATTGAATTGTATAGGTATACAC
* * *
37125577 CTATTACCTAATTGATTTGTATATGTAT
66 CTATTGCCGAATTGAATTGTATATGTAT
37125605 TTATATATTG
Statistics
Matches: 245, Mismatches: 38, Indels: 4
0.85 0.13 0.01
Matches are distributed among these distances:
95 2 0.01
96 241 0.98
97 2 0.01
ACGTcount: A:0.31, C:0.11, G:0.17, T:0.41
Consensus pattern (96 bp):
TATATTGTCGAATTGAATTGTATATGTATACTTATATTGCCGAATTGAATTGTATAGGTATACAC
CTATTGCCGAATTGAATTGTATATGTATACT
Found at i:37125615 original size:64 final size:64
Alignment explanation
Indices: 37125224--37125604 Score: 512
Period size: 64 Copynumber: 6.0 Consensus size: 64
37125214 ATATGTTTTA
* * *** * * *
37125224 TATATTGTCGAATTGAATTGTATATGTATACTTATATTGCCGAATTAAATTGTATAGGTATACA
1 TATATTGCCGAATTGAATTGTATAGGTATACACCTATTGCCGAATTGAATTGTATATGTATACT
** * * *** * *
37125288 CCTATTGCCGAATTGAATTGCATATGTATACTTATATTGGCGAATTGAATTGTGTATGTATACT
1 TATATTGCCGAATTGAATTGTATAGGTATACACCTATTGCCGAATTGAATTGTATATGTATACT
37125352 TATATTG-CGAAATTGAATTGTATAGGTATACACCTATTGCCGAATTGAATTGTATATGTATACT
1 TATATTGCCG-AATTGAATTGTATAGGTATACACCTATTGCCGAATTGAATTGTATATGTATACT
** * *
37125416 TATATTGTTGAATTGAATTGTATAGGTATACACCTATTGTCGAATTGAATTGTGTATGTATACT
1 TATATTGCCGAATTGAATTGTATAGGTATACACCTATTGCCGAATTGAATTGTATATGTATACT
*
37125480 TATATTGCCGAATTGAATTGTATAGGTATACACCTATTGCCGAATTGAATTGTGTATGTATACT
1 TATATTGCCGAATTGAATTGTATAGGTATACACCTATTGCCGAATTGAATTGTATATGTATACT
* * * *
37125544 TATATTGCCGAATTGAATTGCATAGGTATACACCTATTACCTAATTGATTTGTATATGTAT
1 TATATTGCCGAATTGAATTGTATAGGTATACACCTATTGCCGAATTGAATTGTATATGTAT
37125605 TTATATATTG
Statistics
Matches: 286, Mismatches: 29, Indels: 4
0.90 0.09 0.01
Matches are distributed among these distances:
63 2 0.01
64 283 0.99
65 1 0.00
ACGTcount: A:0.31, C:0.11, G:0.17, T:0.41
Consensus pattern (64 bp):
TATATTGCCGAATTGAATTGTATAGGTATACACCTATTGCCGAATTGAATTGTATATGTATACT
Found at i:37125806 original size:43 final size:43
Alignment explanation
Indices: 37125742--37125856 Score: 176
Period size: 43 Copynumber: 2.7 Consensus size: 43
37125732 GCTTCTGAGC
* *
37125742 TGTAAGACAATGTCTGGGACATTGGCATCAAAGTGAGGAAACG
1 TGTAAGACCATGTTTGGGACATTGGCATCAAAGTGAGGAAACG
* * *
37125785 TGTAAGACCATGTTTGAGACATTGGCATCGAAGTGAGGAAATG
1 TGTAAGACCATGTTTGGGACATTGGCATCAAAGTGAGGAAACG
*
37125828 TGCAAGACCATGTTTGGGACATTGGCATC
1 TGTAAGACCATGTTTGGGACATTGGCATC
37125857 GTGTATGATT
Statistics
Matches: 65, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
43 65 1.00
ACGTcount: A:0.31, C:0.15, G:0.30, T:0.24
Consensus pattern (43 bp):
TGTAAGACCATGTTTGGGACATTGGCATCAAAGTGAGGAAACG
Found at i:37129652 original size:23 final size:23
Alignment explanation
Indices: 37129622--37129667 Score: 76
Period size: 23 Copynumber: 2.0 Consensus size: 23
37129612 TAAAAAGAAT
37129622 TAAAATAATAGTACAT-AATAAAA
1 TAAAATAAT-GTACATAAATAAAA
37129645 TAAAATAATGTACATAAATAAAA
1 TAAAATAATGTACATAAATAAAA
37129668 ATAGGTGGGT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
22 6 0.27
23 16 0.73
ACGTcount: A:0.65, C:0.04, G:0.04, T:0.26
Consensus pattern (23 bp):
TAAAATAATGTACATAAATAAAA
Found at i:37131699 original size:44 final size:44
Alignment explanation
Indices: 37131390--37131696 Score: 497
Period size: 44 Copynumber: 7.0 Consensus size: 44
37131380 AGACAGGATC
*
37131390 TACAATCTTACACCTATTCCACTGCTGTTCAGGGAGCTAGGACA
1 TACAATCTTCCACCTATTCCACTGCTGTTCAGGGAGCTAGGACA
*
37131434 TGCAATCTTCCACCTATTCCACTGCTGTTCAGGGAGCTAGGACA
1 TACAATCTTCCACCTATTCCACTGCTGTTCAGGGAGCTAGGACA
* * *
37131478 TGCAATCTTCCACCTATTCCACTGCTGTTCAGGGAGTTAGGACT
1 TACAATCTTCCACCTATTCCACTGCTGTTCAGGGAGCTAGGACA
*
37131522 TACAATCTTCCACCTATTCCACTGCTGTTCAGGGAGATAGGACA
1 TACAATCTTCCACCTATTCCACTGCTGTTCAGGGAGCTAGGACA
* * * *
37131566 TACAATTTTCCACCTATTCCAATGTTGTTCAGGTAGCTAGGACA
1 TACAATCTTCCACCTATTCCACTGCTGTTCAGGGAGCTAGGACA
* *
37131610 TGCAATCTTCCACCTATTCCACTGCTGTTCAGGGAGCTAGGACT
1 TACAATCTTCCACCTATTCCACTGCTGTTCAGGGAGCTAGGACA
*
37131654 TACAATCTTCCACCTATTCCACTGCTGTTCAGGGAGATAGGAC
1 TACAATCTTCCACCTATTCCACTGCTGTTCAGGGAGCTAGGAC
37131697 TTATAGTTTC
Statistics
Matches: 243, Mismatches: 20, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
44 243 1.00
ACGTcount: A:0.24, C:0.27, G:0.19, T:0.29
Consensus pattern (44 bp):
TACAATCTTCCACCTATTCCACTGCTGTTCAGGGAGCTAGGACA
Found at i:37132943 original size:19 final size:18
Alignment explanation
Indices: 37132916--37132956 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 18
37132906 GGCCTCTCTA
**
37132916 TTTTTATTTTTTCCATTT
1 TTTTTATTTTCACCATTT
37132934 TTTTTCATTTTCACCATTT
1 TTTTT-ATTTTCACCATTT
37132953 TTTT
1 TTTT
37132957 GACTCAAAGT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
18 5 0.25
19 15 0.75
ACGTcount: A:0.12, C:0.15, G:0.00, T:0.73
Consensus pattern (18 bp):
TTTTTATTTTCACCATTT
Found at i:37133067 original size:62 final size:64
Alignment explanation
Indices: 37132941--37133067 Score: 154
Period size: 62 Copynumber: 2.0 Consensus size: 64
37132931 TTTTTTTTCA
* * * *
37132941 TTTTCACCATTTTTTTGACTCAAAGTGCCTCTTGCAGGTTTTCACCTTGATCTTTCTTCTTTTT
1 TTTTCACCATTTTTTTGACTCAAAGTACCTCTTACAGGTTTTCACCTTGATCCTTCTTCCTTTT
* *
37133005 TTTTC-CC-TTTTTTTGACTCAAAGTAACCT-TTACGGGTTTTCACCTTGGTCCCTTC-TCCTTT
1 TTTTCACCATTTTTTTGACTCAAAGT-ACCTCTTACAGGTTTTCACCTTGAT-CCTTCTTCCTTT
37133066 T
64 T
37133067 T
1 T
37133068 AGGCAAAGTA
Statistics
Matches: 55, Mismatches: 6, Indels: 6
0.82 0.09 0.09
Matches are distributed among these distances:
62 41 0.75
63 9 0.16
64 5 0.09
ACGTcount: A:0.13, C:0.25, G:0.11, T:0.50
Consensus pattern (64 bp):
TTTTCACCATTTTTTTGACTCAAAGTACCTCTTACAGGTTTTCACCTTGATCCTTCTTCCTTTT
Found at i:37138105 original size:16 final size:16
Alignment explanation
Indices: 37138084--37138117 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
37138074 TCGACTGTTG
*
37138084 TTTCTTTCTTTTGCTT
1 TTTCTTTCTTTTACTT
37138100 TTTCTTTCTTTTACTT
1 TTTCTTTCTTTTACTT
37138116 TT
1 TT
37138118 CTGTCAAATA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.03, C:0.18, G:0.03, T:0.76
Consensus pattern (16 bp):
TTTCTTTCTTTTACTT
Found at i:37144009 original size:10 final size:11
Alignment explanation
Indices: 37143979--37144012 Score: 52
Period size: 11 Copynumber: 3.2 Consensus size: 11
37143969 TACACCAATG
37143979 AATAACAAACA
1 AATAACAAACA
*
37143990 ATTAACAAACA
1 AATAACAAACA
37144001 AAT-ACAAACA
1 AATAACAAACA
37144011 AA
1 AA
37144013 CATAACAACA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
10 9 0.43
11 12 0.57
ACGTcount: A:0.71, C:0.18, G:0.00, T:0.12
Consensus pattern (11 bp):
AATAACAAACA
Found at i:37144382 original size:23 final size:23
Alignment explanation
Indices: 37144352--37144397 Score: 76
Period size: 23 Copynumber: 2.0 Consensus size: 23
37144342 TAAAAAGAAT
37144352 TAAAATAATAGTACAT-AATAAAA
1 TAAAATAAT-GTACATAAATAAAA
37144375 TAAAATAATGTACATAAATAAAA
1 TAAAATAATGTACATAAATAAAA
37144398 ATAGGTGGGT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
22 6 0.27
23 16 0.73
ACGTcount: A:0.65, C:0.04, G:0.04, T:0.26
Consensus pattern (23 bp):
TAAAATAATGTACATAAATAAAA
Found at i:37153836 original size:25 final size:25
Alignment explanation
Indices: 37153808--37153864 Score: 78
Period size: 25 Copynumber: 2.3 Consensus size: 25
37153798 ATCCCCAACA
* *
37153808 AAATTTTGACTATTTTACCCCTGGT
1 AAATTTTGACAATTTTACCCCTAGT
* *
37153833 AAATTTTGACAATTTTGCCCCTATT
1 AAATTTTGACAATTTTACCCCTAGT
37153858 AAATTTT
1 AAATTTT
37153865 CGAGAAACTA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 28 1.00
ACGTcount: A:0.28, C:0.18, G:0.09, T:0.46
Consensus pattern (25 bp):
AAATTTTGACAATTTTACCCCTAGT
Done.