Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D05
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: 64368997
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1610000 characters in sequence are not A, C, G, or T
File 40 of 208
Found at i:15432690 original size:63 final size:67
Alignment explanation
Indices: 15432591--15432752 Score: 242
Period size: 63 Copynumber: 2.4 Consensus size: 67
15432581 CATATATGCT
*
15432591 TAACAAATATTATCATCGAATGTATATACACTTTAAACATGAATAGCTGAATGC-T-TATAC-A-
1 TAACAAATATTATCACCGAATGTATATACACTTTAAACATGAATAGCTGAATGCATATATACAAG
15432652 CA
66 CA
*
15432654 TAACAAATATTATCACCGAATGTATATACACTTTAAACATGAATAGTTGAATGCATATATACATA
1 TAACAAATATTATCACCGAATGTATATACACTTTAAACATGAATAGCTGAATGCATATATACA-A
*
15432719 TGCC
65 -GCA
*
15432723 TAACAAGTATTATCACCGAATGTATATACA
1 TAACAAATATTATCACCGAATGTATATACA
15432753 TGTTCTTCAA
Statistics
Matches: 89, Mismatches: 4, Indels: 6
0.90 0.04 0.06
Matches are distributed among these distances:
63 52 0.58
64 1 0.01
65 5 0.06
67 1 0.01
69 30 0.34
ACGTcount: A:0.43, C:0.16, G:0.10, T:0.31
Consensus pattern (67 bp):
TAACAAATATTATCACCGAATGTATATACACTTTAAACATGAATAGCTGAATGCATATATACAAG
CA
Found at i:15432925 original size:41 final size:41
Alignment explanation
Indices: 15432866--15432983 Score: 146
Period size: 41 Copynumber: 2.9 Consensus size: 41
15432856 TGATTCAGTA
* * * * * *
15432866 CACCGGCTTTTAGCCTGCTAGACTTATAGTCTGAATTGTTT
1 CACCGGCATTAAGCCTGCTAGACATAAAGTCTGAAATCTTT
*
15432907 CACCGGCATTAAGTCTGCTAGACATAAAGTCTGAAATCTTT
1 CACCGGCATTAAGCCTGCTAGACATAAAGTCTGAAATCTTT
* * *
15432948 CACCGGCATCAAACCTGCTAGACGTAAAGTCTGAAA
1 CACCGGCATTAAGCCTGCTAGACATAAAGTCTGAAA
15432984 CATTCGATCA
Statistics
Matches: 66, Mismatches: 11, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
41 66 1.00
ACGTcount: A:0.29, C:0.24, G:0.19, T:0.29
Consensus pattern (41 bp):
CACCGGCATTAAGCCTGCTAGACATAAAGTCTGAAATCTTT
Found at i:15434323 original size:44 final size:44
Alignment explanation
Indices: 15434270--15434360 Score: 155
Period size: 44 Copynumber: 2.1 Consensus size: 44
15434260 TGAAGTATTC
*
15434270 AAAGGAACAATCTCAAAAACGTAAAAATTATCAAAAACCGAGCT
1 AAAGCAACAATCTCAAAAACGTAAAAATTATCAAAAACCGAGCT
* *
15434314 AAAGCAACAATCTCAAAAACGTAAAATTTATCAAAAATCGAGCT
1 AAAGCAACAATCTCAAAAACGTAAAAATTATCAAAAACCGAGCT
15434358 AAA
1 AAA
15434361 ACGAACTTTA
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
44 44 1.00
ACGTcount: A:0.55, C:0.18, G:0.10, T:0.18
Consensus pattern (44 bp):
AAAGCAACAATCTCAAAAACGTAAAAATTATCAAAAACCGAGCT
Found at i:15435651 original size:20 final size:20
Alignment explanation
Indices: 15435613--15435651 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
15435603 TAAATTATGT
15435613 ATATTTATATGTTTGAATTGA
1 ATATTTATATG-TTGAATTGA
15435634 ATATTGTATATG-TGAATT
1 ATATT-TATATGTTGAATT
15435652 ATGTAATTCA
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
20 6 0.35
21 5 0.29
22 6 0.35
ACGTcount: A:0.33, C:0.00, G:0.15, T:0.51
Consensus pattern (20 bp):
ATATTTATATGTTGAATTGA
Found at i:15436009 original size:25 final size:25
Alignment explanation
Indices: 15435981--15436122 Score: 107
Period size: 24 Copynumber: 5.9 Consensus size: 25
15435971 GGCTTTTTAT
**
15435981 GAGCTTCTTGATTAATGGCTCTCCG
1 GAGCTTCCCGATTAATGGCTCTCCG
* *
15436006 GAGCTTCCAGA-T-ATGGCTCGCTC-
1 GAGCTTCCCGATTAATGGCTCTC-CG
* * *
15436029 GAACTTCCCGATTTATGGCTATCCG
1 GAGCTTCCCGATTAATGGCTCTCCG
* *
15436054 GAGCTTCTCG-TTAATGGCTCTTCG
1 GAGCTTCCCGATTAATGGCTCTCCG
* * * **
15436078 GAGCTACCCG-TTATTGGCTCGCAT
1 GAGCTTCCCGATTAATGGCTCTCCG
15436102 GAGCTTCCCGATT-ATGGCTCT
1 GAGCTTCCCGATTAATGGCTCT
15436123 TATGAGCTTC
Statistics
Matches: 90, Mismatches: 22, Indels: 11
0.73 0.18 0.09
Matches are distributed among these distances:
23 17 0.19
24 47 0.52
25 26 0.29
ACGTcount: A:0.16, C:0.27, G:0.24, T:0.32
Consensus pattern (25 bp):
GAGCTTCCCGATTAATGGCTCTCCG
Found at i:15436072 original size:72 final size:73
Alignment explanation
Indices: 15435981--15436120 Score: 187
Period size: 72 Copynumber: 1.9 Consensus size: 73
15435971 GGCTTTTTAT
* *
15435981 GAGCTTCTTGATTAATGGCTCTCCGGAGCTTCCAGATA-TGGCTCGC-TCGAACTTCCCGATTTA
1 GAGCTTCTCGATTAATGGCTCTCCGGAGCTACCAGATATTGGCTCGCAT-GAACTTCCCGA-TTA
15436044 TGGCTATCCG
64 TGGCTATCCG
* * * *
15436054 GAGCTTCTCG-TTAATGGCTCTTCGGAGCTACCCGTTATTGGCTCGCATGAGCTTCCCGATTATG
1 GAGCTTCTCGATTAATGGCTCTCCGGAGCTACCAGATATTGGCTCGCATGAACTTCCCGATTATG
15436118 GCT
66 GCT
15436121 CTTATGAGCT
Statistics
Matches: 59, Mismatches: 6, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
72 31 0.53
73 27 0.46
74 1 0.02
ACGTcount: A:0.16, C:0.27, G:0.24, T:0.32
Consensus pattern (73 bp):
GAGCTTCTCGATTAATGGCTCTCCGGAGCTACCAGATATTGGCTCGCATGAACTTCCCGATTATG
GCTATCCG
Found at i:15436127 original size:24 final size:24
Alignment explanation
Indices: 15435921--15436134 Score: 76
Period size: 24 Copynumber: 8.7 Consensus size: 24
15435911 GCACACCGTA
* * *
15435921 GCTCTTATGAGCGTCTCGTTATATG
1 GCTCTTATGAGCTTCCCGAT-TATG
* * * *
15435946 GCTCTTCATGAGTTTCCCAACTAAAG
1 GCTCTT-ATGAGCTTCCCGA-TTATG
* **
15435972 GCTTTTTATGAGCTTCTTGATTAATG
1 GC-TCTTATGAGCTTCCCGATT-ATG
*** *
15435998 GCTCTCCGGAGCTTCCAGA-TATG
1 GCTCTTATGAGCTTCCCGATTATG
* * *
15436021 GCTCGCT-CGAACTTCCCGATTTATG
1 GCTC-TTATGAGCTTCCCGA-TTATG
* *** *
15436046 GCTATCCGGAGCTTCTCG-TTAATG
1 GCTCTTATGAGCTTCCCGATT-ATG
** *
15436070 GCTCTTCGGAGCTACCCG-TTATTG
1 GCTCTTATGAGCTTCCCGATTA-TG
**
15436094 GCTCGCATGAGCTTCCCGATTATG
1 GCTCTTATGAGCTTCCCGATTATG
15436118 GCTCTTATGAGCTTCCC
1 GCTCTTATGAGCTTCCC
15436135 TTTATACAGC
Statistics
Matches: 136, Mismatches: 42, Indels: 23
0.68 0.21 0.11
Matches are distributed among these distances:
23 19 0.14
24 52 0.38
25 36 0.26
26 25 0.18
27 4 0.03
ACGTcount: A:0.17, C:0.26, G:0.22, T:0.35
Consensus pattern (24 bp):
GCTCTTATGAGCTTCCCGATTATG
Found at i:15436130 original size:72 final size:73
Alignment explanation
Indices: 15435977--15436132 Score: 183
Period size: 72 Copynumber: 2.2 Consensus size: 73
15435967 TAAAGGCTTT
* *
15435977 TTATGAGCTTCTTGATTAATGGCTCTCCGGAGCTTCCAGATATGGCTCGCTCGAACTTCCCGATT
1 TTATGAGCTTCTCGATTAATGGCTCTCCGGAGCTACCAGATATGGCTCGCTCGAACTTCCCGATT
15436042 TATGGCTA
66 TATGGCTA
*** * * * *
15436050 TCCGGAGCTTCTCG-TTAATGGCTCTTCGGAGCTACCCGTTATTGGCTCGCAT-GAGCTTCCCGA
1 TTATGAGCTTCTCGATTAATGGCTCTCCGGAGCTACCAGATA-TGGCTCGC-TCGAACTTCCCGA
*
15436113 -TTATGGCTC
64 TTTATGGCTA
15436122 TTATGAGCTTC
1 TTATGAGCTTC
15436133 CCTTTATACA
Statistics
Matches: 68, Mismatches: 13, Indels: 5
0.79 0.15 0.06
Matches are distributed among these distances:
72 39 0.57
73 28 0.41
74 1 0.01
ACGTcount: A:0.17, C:0.26, G:0.23, T:0.34
Consensus pattern (73 bp):
TTATGAGCTTCTCGATTAATGGCTCTCCGGAGCTACCAGATATGGCTCGCTCGAACTTCCCGATT
TATGGCTA
Found at i:15439823 original size:377 final size:377
Alignment explanation
Indices: 15439129--15439882 Score: 1499
Period size: 377 Copynumber: 2.0 Consensus size: 377
15439119 CCATATTTTT
15439129 TTACACTGGCTAAAATTGAGTCGTTACAAATCTGATGGCCAATGTCAAAAATTGAAGAATAAAGC
1 TTACACTGGCTAAAATTGAGTCGTTACAAATCTGATGGCCAATGTCAAAAATTGAAGAATAAAGC
15439194 TATTCGAATTTTGGTTCGCATATTGGTGACGTTCAAAGTTGTTTTATGAAAAAAATACTAATATG
66 TATTCGAATTTTGGTTCGCATATTGGTGACGTTCAAAGTTGTTTTATGAAAAAAATACTAATATG
15439259 TAGAAGATGAATGAAAGTTTACCCATCTAATCGGTGTTGGAGGTGAGAATGAAGAAGGCCATACA
131 TAGAAGATGAATGAAAGTTTACCCATCTAATCGGTGTTGGAGGTGAGAATGAAGAAGGCCATACA
15439324 ACAACAATTTTAACAATCTAGTGACTTAAATGAAAACTTTCCAATAACTTAATGACCATTTTCTA
196 ACAACAATTTTAACAATCTAGTGACTTAAATGAAAACTTTCCAATAACTTAATGACCATTTTCTA
15439389 ACTTTTTAAAGTTGAGTGACCAAATCTTAAATTTATTAATAATTCAGTGACCTTAAATGTAATTT
261 ACTTTTTAAAGTTGAGTGACCAAATCTTAAATTTATTAATAATTCAGTGACCTTAAATGTAATTT
15439454 ATCCTAAAATAAAAAAGTAAATGATATGTATTAGTAATTTTATAAAGTAAAA
326 ATCCTAAAATAAAAAAGTAAATGATATGTATTAGTAATTTTATAAAGTAAAA
15439506 TTACACTGGCTAAAATTGAGTCGTTACAAATCTGATGGCCAATGTCAAAAATTGAAGAATAAAGC
1 TTACACTGGCTAAAATTGAGTCGTTACAAATCTGATGGCCAATGTCAAAAATTGAAGAATAAAGC
15439571 TATTCGAATTTTGGTTCGCATATTGGTGACGTTCAAAGTTGTTTTATGAAAAAAATACTAATATG
66 TATTCGAATTTTGGTTCGCATATTGGTGACGTTCAAAGTTGTTTTATGAAAAAAATACTAATATG
15439636 TAGAAGATGAATGAAAGTTTACCCATCTAATCGGTGTTGGAGGTGAGAATGAAGAAGGCCATACA
131 TAGAAGATGAATGAAAGTTTACCCATCTAATCGGTGTTGGAGGTGAGAATGAAGAAGGCCATACA
*
15439701 ACAACAATTTTAACAATCTAGTGACTTAAATGAAAACTTTCTAATAACTTAATGACCATTTTCTA
196 ACAACAATTTTAACAATCTAGTGACTTAAATGAAAACTTTCCAATAACTTAATGACCATTTTCTA
15439766 ACTTTTTAAAGTTGAGTGACCAAATCTTAAATTTATTAATAATTCAGTGACCTTAAATGTAATTT
261 ACTTTTTAAAGTTGAGTGACCAAATCTTAAATTTATTAATAATTCAGTGACCTTAAATGTAATTT
15439831 ATCCTAAAATAAAAAAGTAAATGATATGTATTAGTAATTTTATAAAGTAAAA
326 ATCCTAAAATAAAAAAGTAAATGATATGTATTAGTAATTTTATAAAGTAAAA
15439883 ATTAAGATTT
Statistics
Matches: 376, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
377 376 1.00
ACGTcount: A:0.40, C:0.12, G:0.15, T:0.33
Consensus pattern (377 bp):
TTACACTGGCTAAAATTGAGTCGTTACAAATCTGATGGCCAATGTCAAAAATTGAAGAATAAAGC
TATTCGAATTTTGGTTCGCATATTGGTGACGTTCAAAGTTGTTTTATGAAAAAAATACTAATATG
TAGAAGATGAATGAAAGTTTACCCATCTAATCGGTGTTGGAGGTGAGAATGAAGAAGGCCATACA
ACAACAATTTTAACAATCTAGTGACTTAAATGAAAACTTTCCAATAACTTAATGACCATTTTCTA
ACTTTTTAAAGTTGAGTGACCAAATCTTAAATTTATTAATAATTCAGTGACCTTAAATGTAATTT
ATCCTAAAATAAAAAAGTAAATGATATGTATTAGTAATTTTATAAAGTAAAA
Found at i:15440120 original size:48 final size:48
Alignment explanation
Indices: 15440053--15440148 Score: 140
Period size: 48 Copynumber: 2.0 Consensus size: 48
15440043 ATATACATTT
* * *
15440053 TAATTTAATCTCTTGACTAGTGACTGGTCATTTTCTAT-TGTCATTTAC
1 TAATTTAATCTCTTAACTAGTGAATGGTCAATTTCT-TCTGTCATTTAC
*
15440101 TAATTTAATGTCTTAACTAGTGAATGGTCAATTTCTTCTGTCATTTAC
1 TAATTTAATCTCTTAACTAGTGAATGGTCAATTTCTTCTGTCATTTAC
15440149 ATTTTCTGTT
Statistics
Matches: 43, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
47 1 0.02
48 42 0.98
ACGTcount: A:0.25, C:0.16, G:0.12, T:0.47
Consensus pattern (48 bp):
TAATTTAATCTCTTAACTAGTGAATGGTCAATTTCTTCTGTCATTTAC
Found at i:15467852 original size:2 final size:2
Alignment explanation
Indices: 15467845--15467873 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
15467835 CAGATGAGGC
15467845 AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
15467874 AAATAGAAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:15471794 original size:22 final size:20
Alignment explanation
Indices: 15471758--15471815 Score: 57
Period size: 20 Copynumber: 2.8 Consensus size: 20
15471748 GGCCCGGCCC
15471758 ATTT-TTTTAATAAATACCAAAA
1 ATTTATTTTAA-AAATA--AAAA
15471780 ATTTATTTTAAAAATTAAAAA
1 ATTTATTTTAAAAA-TAAAAA
*
15471801 A-ATATTTTAAAAATA
1 ATTTATTTTAAAAATA
15471816 TTTTAAAATT
Statistics
Matches: 33, Mismatches: 1, Indels: 7
0.80 0.02 0.17
Matches are distributed among these distances:
19 2 0.06
20 11 0.33
21 5 0.15
22 7 0.21
23 8 0.24
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.41
Consensus pattern (20 bp):
ATTTATTTTAAAAATAAAAA
Found at i:15471799 original size:20 final size:20
Alignment explanation
Indices: 15471783--15471900 Score: 66
Period size: 21 Copynumber: 6.0 Consensus size: 20
15471773 ACCAAAAATT
15471783 TATTTTAAAAATTAAAAAAA
1 TATTTTAAAAATTAAAAAAA
***
15471803 TATTTTAAAAATATTTTAAAA
1 TATTTTAAAAAT-TAAAAAAA
*** *
15471824 T-TAAAAAAAAATT-AAAAAG
1 TAT-TTTAAAAATTAAAAAAA
15471843 TATTTT-AAAATTAAAAAAA
1 TATTTTAAAAATTAAAAAAA
* * **
15471862 -AATTAAAAAGTATTTTAAAAA
1 TATTTTAAAA--ATTAAAAAAA
15471883 TATTTT-AAAATTAAAAAA
1 TATTTTAAAAATTAAAAAA
15471901 CTTTAAAAAA
Statistics
Matches: 69, Mismatches: 21, Indels: 17
0.64 0.20 0.16
Matches are distributed among these distances:
18 9 0.13
19 19 0.28
20 15 0.22
21 23 0.33
22 3 0.04
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.36
Consensus pattern (20 bp):
TATTTTAAAAATTAAAAAAA
Found at i:15471824 original size:10 final size:11
Alignment explanation
Indices: 15471798--15471823 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
15471788 TAAAAATTAA
15471798 AAAAATATTTT
1 AAAAATATTTT
15471809 AAAAATATTTT
1 AAAAATATTTT
15471820 AAAA
1 AAAA
15471824 TTAAAAAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (11 bp):
AAAAATATTTT
Found at i:15471841 original size:29 final size:29
Alignment explanation
Indices: 15471783--15471881 Score: 155
Period size: 29 Copynumber: 3.3 Consensus size: 29
15471773 ACCAAAAATT
*
15471783 TATTTTAAAAATTAAAAAAATATTTTAAAAA-
1 TATTTT-AAAATTAAAAAAA-A-ATTAAAAAG
15471814 TATTTTAAAATTAAAAAAAAATTAAAAAG
1 TATTTTAAAATTAAAAAAAAATTAAAAAG
15471843 TATTTTAAAATTAAAAAAAAATTAAAAAG
1 TATTTTAAAATTAAAAAAAAATTAAAAAG
15471872 TATTTTAAAA
1 TATTTTAAAA
15471882 ATATTTTAAA
Statistics
Matches: 66, Mismatches: 1, Indels: 4
0.93 0.01 0.06
Matches are distributed among these distances:
28 7 0.11
29 40 0.61
30 13 0.20
31 6 0.09
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (29 bp):
TATTTTAAAATTAAAAAAAAATTAAAAAG
Found at i:15471847 original size:40 final size:40
Alignment explanation
Indices: 15471789--15471900 Score: 129
Period size: 29 Copynumber: 3.0 Consensus size: 40
15471779 AATTTATTTT
*
15471789 AAAAATTAAAAAAATATTTTAAAAATATTTTAAAATTAAAA
1 AAAAATT-AAAAAGTATTTTAAAAATATTTTAAAATTAAAA
15471830 AAAAATTAAAAAG-----------TATTTTAAAATTAAAA
1 AAAAATTAAAAAGTATTTTAAAAATATTTTAAAATTAAAA
15471859 AAAAATTAAAAAGTATTTTAAAAATATTTTAAAATTAAAA
1 AAAAATTAAAAAGTATTTTAAAAATATTTTAAAATTAAAA
15471899 AA
1 AA
15471901 CTTTAAAAAA
Statistics
Matches: 59, Mismatches: 1, Indels: 23
0.71 0.01 0.28
Matches are distributed among these distances:
29 29 0.49
40 23 0.39
41 7 0.12
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (40 bp):
AAAAATTAAAAAGTATTTTAAAAATATTTTAAAATTAAAA
Found at i:15476136 original size:5 final size:5
Alignment explanation
Indices: 15476126--15476150 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
15476116 ATTTAATCAA
15476126 AAAAG AAAAG AAAAG AAAAG AAAAG
1 AAAAG AAAAG AAAAG AAAAG AAAAG
15476151 GGCCTCTCTC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (5 bp):
AAAAG
Found at i:15481089 original size:31 final size:31
Alignment explanation
Indices: 15481054--15481124 Score: 115
Period size: 31 Copynumber: 2.3 Consensus size: 31
15481044 ATAATTTTTT
*
15481054 GGACAAGTTTAAGTATCAACTAGATACTTTC
1 GGACAAGTTTAAGTACCAACTAGATACTTTC
* *
15481085 GGACAAGTTTAGGTACCAACTAGATACTTTT
1 GGACAAGTTTAAGTACCAACTAGATACTTTC
15481116 GGACAAGTT
1 GGACAAGTT
15481125 CATAGGGCAA
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
31 37 1.00
ACGTcount: A:0.34, C:0.15, G:0.20, T:0.31
Consensus pattern (31 bp):
GGACAAGTTTAAGTACCAACTAGATACTTTC
Found at i:15481633 original size:29 final size:30
Alignment explanation
Indices: 15481578--15481652 Score: 82
Period size: 29 Copynumber: 2.5 Consensus size: 30
15481568 AAATTTTATT
*
15481578 TAAATCAAAATGTT-ATATATAAAATTACAGA
1 TAAATC-AAA-GTTCATATATAAAATTACACA
* *
15481609 -AAATCAAAGTTCATATATGACATTACACA
1 TAAATCAAAGTTCATATATAAAATTACACA
15481638 TTAAATCAAAGTTCA
1 -TAAATCAAAGTTCA
15481653 CATGTAGTTT
Statistics
Matches: 38, Mismatches: 3, Indels: 6
0.81 0.06 0.13
Matches are distributed among these distances:
28 3 0.08
29 17 0.45
30 5 0.13
31 13 0.34
ACGTcount: A:0.51, C:0.12, G:0.07, T:0.31
Consensus pattern (30 bp):
TAAATCAAAGTTCATATATAAAATTACACA
Found at i:15503492 original size:18 final size:18
Alignment explanation
Indices: 15503459--15503505 Score: 78
Period size: 18 Copynumber: 2.7 Consensus size: 18
15503449 ATAACTTTTA
*
15503459 AATAAT-TTTTATTAAGT
1 AATAATATTTTAATAAGT
15503476 AATAATATTTTAATAAGT
1 AATAATATTTTAATAAGT
15503494 AATAATATTTTA
1 AATAATATTTTA
15503506 TTATATATAT
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
17 6 0.21
18 22 0.79
ACGTcount: A:0.47, C:0.00, G:0.04, T:0.49
Consensus pattern (18 bp):
AATAATATTTTAATAAGT
Found at i:15505540 original size:18 final size:16
Alignment explanation
Indices: 15505500--15505548 Score: 64
Period size: 18 Copynumber: 3.0 Consensus size: 16
15505490 GAAAAAATTC
*
15505500 TAATTAATATTTTTAA
1 TAATTATTATTTTTAA
15505516 TAA-TATTATTTATTACA
1 TAATTATTATTT-TTA-A
15505533 TAATTATTATTTTTAA
1 TAATTATTATTTTTAA
15505549 AGTTACAATA
Statistics
Matches: 29, Mismatches: 1, Indels: 6
0.81 0.03 0.17
Matches are distributed among these distances:
15 7 0.24
16 7 0.24
17 7 0.24
18 8 0.28
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.57
Consensus pattern (16 bp):
TAATTATTATTTTTAA
Found at i:15505819 original size:9 final size:9
Alignment explanation
Indices: 15505802--15505838 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
15505792 TGAGTTTTCG
15505802 AATTCGAAT
1 AATTCGAAT
*
15505811 AACTCGAAT
1 AATTCGAAT
15505820 AATTCGAAT
1 AATTCGAAT
15505829 AATTCGAAT
1 AATTCGAAT
15505838 A
1 A
15505839 TTAAACTATA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.46, C:0.14, G:0.11, T:0.30
Consensus pattern (9 bp):
AATTCGAAT
Found at i:15506381 original size:17 final size:17
Alignment explanation
Indices: 15506361--15506407 Score: 62
Period size: 17 Copynumber: 2.8 Consensus size: 17
15506351 CACATTTTAT
15506361 ATTATTTATATTATTGA
1 ATTATTTATATTATTGA
15506378 ATTATTTAGTCA-TATTGA
1 ATTATTTA-T-ATTATTGA
15506396 A-TATTTATATTA
1 ATTATTTATATTA
15506408 AAATTAAATT
Statistics
Matches: 27, Mismatches: 0, Indels: 7
0.79 0.00 0.21
Matches are distributed among these distances:
15 1 0.04
16 3 0.11
17 14 0.52
18 8 0.30
19 1 0.04
ACGTcount: A:0.36, C:0.02, G:0.06, T:0.55
Consensus pattern (17 bp):
ATTATTTATATTATTGA
Found at i:15506864 original size:5 final size:5
Alignment explanation
Indices: 15506854--15506880 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
15506844 AAAATTTTTA
15506854 ATTCG ATTCG ATTCG ATTCG ATTCG AT
1 ATTCG ATTCG ATTCG ATTCG ATTCG AT
15506881 CAAATACTCA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.22, C:0.19, G:0.19, T:0.41
Consensus pattern (5 bp):
ATTCG
Found at i:15514561 original size:38 final size:39
Alignment explanation
Indices: 15514462--15514586 Score: 136
Period size: 38 Copynumber: 3.3 Consensus size: 39
15514452 TCTTCGAATG
** * *
15514462 CATATATATATA-TTATTCAAATACATATGCCAAAAGCAA
1 CATATATATATACTTA-TCAACCACATATGCCGAATGCAA
*
15514501 -ATA-AT-TATACTTATCAACCACATGTGCCGAATGC-A
1 CATATATATATACTTATCAACCACATATGCCGAATGCAA
15514536 CATATATATATACTTAT-AACTCACATATGCCGAATGCATA
1 CATATATATATACTTATCAAC-CACATATGCCGAATGCA-A
15514576 CATATATATAT
1 CATATATATAT
15514587 CCAACAATTT
Statistics
Matches: 73, Mismatches: 6, Indels: 13
0.79 0.07 0.14
Matches are distributed among these distances:
35 1 0.01
36 23 0.32
37 10 0.14
38 27 0.37
40 12 0.16
ACGTcount: A:0.42, C:0.18, G:0.07, T:0.32
Consensus pattern (39 bp):
CATATATATATACTTATCAACCACATATGCCGAATGCAA
Found at i:15514806 original size:41 final size:41
Alignment explanation
Indices: 15514761--15514871 Score: 159
Period size: 41 Copynumber: 2.7 Consensus size: 41
15514751 ACAGATTCAT
*
15514761 CGGCACTTAGCTTGCTAGGCTTAAAGCCTGATTCAAATCAC
1 CGGCACTTAGCCTGCTAGGCTTAAAGCCTGATTCAAATCAC
* ** *
15514802 CGGCACTTAGCCTGCTAGGCTTATAGCCTGATTCAGTTCAT
1 CGGCACTTAGCCTGCTAGGCTTAAAGCCTGATTCAAATCAC
* *
15514843 CGGCACTTAGCCTGCCAGGCTTTAAGCCT
1 CGGCACTTAGCCTGCTAGGCTTAAAGCCT
15514872 AAATTGATTC
Statistics
Matches: 62, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
41 62 1.00
ACGTcount: A:0.22, C:0.29, G:0.22, T:0.28
Consensus pattern (41 bp):
CGGCACTTAGCCTGCTAGGCTTAAAGCCTGATTCAAATCAC
Found at i:15514912 original size:82 final size:82
Alignment explanation
Indices: 15514756--15514914 Score: 180
Period size: 82 Copynumber: 1.9 Consensus size: 82
15514746 TTAAAACAGA
* * * *
15514756 TTCATCGGCACTTAGCTTGCTAGGCTTAAAGCCTGATTCAAATCACCGGCACTTAGCCTGCTAGG
1 TTCATCGGCACTTAGCCTGCCAGGCTTAAAGCCTAATTCAAATCACCGGCAATTAGCCTGCTAGG
* *
15514821 CTTATAGCCTGATTCAG
66 CCTAGAGCCTGATTCAG
* * * *
15514838 TTCATCGGCACTTAGCCTGCCAGGCTTTAAGCCTAAATT-GATTCACTGGCAATATA-CCTGCTA
1 TTCATCGGCACTTAGCCTGCCAGGCTTAAAGCCT-AATTCAAATCACCGGCAAT-TAGCCTGCTA
15514901 GGCGCT-GAGCCTGA
64 GGC-CTAGAGCCTGA
15514915 ATACGCAATT
Statistics
Matches: 64, Mismatches: 10, Indels: 6
0.80 0.12 0.08
Matches are distributed among these distances:
82 58 0.91
83 6 0.09
ACGTcount: A:0.23, C:0.27, G:0.21, T:0.28
Consensus pattern (82 bp):
TTCATCGGCACTTAGCCTGCCAGGCTTAAAGCCTAATTCAAATCACCGGCAATTAGCCTGCTAGG
CCTAGAGCCTGATTCAG
Found at i:15519931 original size:91 final size:91
Alignment explanation
Indices: 15519793--15520000 Score: 335
Period size: 91 Copynumber: 2.3 Consensus size: 91
15519783 TTGATTTTAG
* *
15519793 TAAATTCATATAAGAACATTTTATTATTAAGAATTTTATGAAATTATATATCATTATTAAATTAT
1 TAAATTCATATAAGAA-AATTTATTATCAAGAATTTTATGAAATTATATATCATTATTAAATTAT
* * *
15519858 ATTTAATATTAATTATTTTAAATTGTA
65 ATGTAATAATAATTATTTTAAATTATA
*
15519885 TAAATTCATATAAGAAAATTTATTATCAAGAATTTTATGAAATTATATATTATTATTAAATTATA
1 TAAATTCATATAAGAAAATTTATTATCAAGAATTTTATGAAATTATATATCATTATTAAATTATA
15519950 TGTAATAATAATTATTTTAAATTATA
66 TGTAATAATAATTATTTTAAATTATA
* *
15519976 CAAATTCATATAAGATAATTTATTA
1 TAAATTCATATAAGAAAATTTATTA
15520001 GTTATAATTA
Statistics
Matches: 108, Mismatches: 8, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
91 92 0.85
92 16 0.15
ACGTcount: A:0.46, C:0.03, G:0.04, T:0.47
Consensus pattern (91 bp):
TAAATTCATATAAGAAAATTTATTATCAAGAATTTTATGAAATTATATATCATTATTAAATTATA
TGTAATAATAATTATTTTAAATTATA
Found at i:15519969 original size:26 final size:28
Alignment explanation
Indices: 15519915--15519975 Score: 81
Period size: 28 Copynumber: 2.2 Consensus size: 28
15519905 TATTATCAAG
* *
15519915 AATTTTATGAAATTATATATTATTATTA
1 AATTATATGAAATAATATATTATTATTA
*
15519943 AATTATATGTAATAATA-ATTATT-TTA
1 AATTATATGAAATAATATATTATTATTA
15519969 AATTATA
1 AATTATA
15519976 CAAATTCATA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
26 10 0.33
27 6 0.20
28 14 0.47
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (28 bp):
AATTATATGAAATAATATATTATTATTA
Found at i:15519975 original size:44 final size:43
Alignment explanation
Indices: 15519833--15519975 Score: 121
Period size: 44 Copynumber: 3.2 Consensus size: 43
15519823 GAATTTTATG
* *
15519833 AAATTATATATCATTATTAAATTATATTTAATATTAATTATTTT
1 AAATTATATATTATTATTAAATTATA-TTAATAATAATTATTTT
* ** * *
15519877 AAATTGTATAAATTCATATAAGAAAATT-TATT-ATCAAGAATT-TTATG
1 AAA-T-TATATATT-AT-T-ATTAAATTATATTAAT-AATAATTATT-TT
15519924 AAATTATATATTATTATTAAATTATATGTAATAATAATTATTTT
1 AAATTATATATTATTATTAAATTATAT-TAATAATAATTATTTT
15519968 AAATTATA
1 AAATTATA
15519976 CAAATTCATA
Statistics
Matches: 76, Mismatches: 12, Indels: 22
0.69 0.11 0.20
Matches are distributed among these distances:
42 6 0.08
43 4 0.05
44 21 0.28
45 12 0.16
46 11 0.14
47 13 0.17
48 3 0.04
49 6 0.08
ACGTcount: A:0.46, C:0.02, G:0.03, T:0.48
Consensus pattern (43 bp):
AAATTATATATTATTATTAAATTATATTAATAATAATTATTTT
Found at i:15520093 original size:59 final size:57
Alignment explanation
Indices: 15520027--15520215 Score: 152
Period size: 59 Copynumber: 3.2 Consensus size: 57
15520017 ATTTTATTAA
15520027 ATCATATATTTTAATTAAAATATATTTAATATTAATTATTTCAAATTATCTTTTATAGT
1 ATCATATATTTTAATTAAAATATATTTAATATTAATTATTT-AAATTAT-TTTTATAGT
* * ** * *
15520086 ATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATT-TTATTA-A--
1 ATCATATATT-TTAATT-A--AAA-T-ATAT-TTAATATTAATTATTTA-AATTATTTTTATAGT
* * * *
15520147 ATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTTTATAGT
1 ATCATATATTTTAATTAAAATATATTTAATATTAATTAT-TTAAATTAT-TTTTATAGT
15520206 ATCATATATT
1 ATCATATATT
15520216 ATGATTTGAG
Statistics
Matches: 99, Mismatches: 17, Indels: 28
0.69 0.12 0.19
Matches are distributed among these distances:
54 14 0.14
55 7 0.07
56 5 0.05
57 3 0.03
59 20 0.20
60 8 0.08
61 10 0.10
63 4 0.04
64 5 0.05
65 6 0.06
66 17 0.17
ACGTcount: A:0.42, C:0.03, G:0.04, T:0.51
Consensus pattern (57 bp):
ATCATATATTTTAATTAAAATATATTTAATATTAATTATTTAAATTATTTTTATAGT
Found at i:15520124 original size:66 final size:64
Alignment explanation
Indices: 15520054--15520252 Score: 186
Period size: 66 Copynumber: 3.2 Consensus size: 64
15520044 AAATATATTT
15520054 AATATTAATTATTTCAAATTATCTTTTATAGTATCATATATTATGATTTGAGTAAATTCATATAA
1 AATATTAATTATTT-AAATTAT-TTTTATAGTATCATATATTATGATTTGAGTAAATTCATATAA
15520119 G
64 G
* * * * * **
15520120 AATATTAATTATTAAGAATT-TTATTA-A--ATTATATATT-TTAATT-A-T-AA-T-ATAT-TT
1 AATATTAATTATTTA-AATTATTTTTATAGTATCATATATTATGATTTGAGTAAATTCATATAAG
* *
15520174 AATAATAATTATGTTAATTTATATTTTATAGTATCATATATTATGATTTGAGTAAATTCATATAA
1 AATATTAATTAT-TTAAATTAT-TTTTATAGTATCATATATTATGATTTGAGTAAATTCATATAA
15520239 G
64 G
*
15520240 AATATTGATTATT
1 AATATTAATTATT
15520253 AAGAATTTTA
Statistics
Matches: 101, Mismatches: 18, Indels: 29
0.68 0.12 0.20
Matches are distributed among these distances:
54 14 0.14
55 7 0.07
56 5 0.05
57 3 0.03
58 1 0.01
59 10 0.10
60 8 0.08
61 10 0.10
62 1 0.01
63 3 0.03
64 5 0.05
65 7 0.07
66 27 0.27
ACGTcount: A:0.41, C:0.03, G:0.07, T:0.49
Consensus pattern (64 bp):
AATATTAATTATTTAAATTATTTTTATAGTATCATATATTATGATTTGAGTAAATTCATATAAG
Found at i:15520140 original size:120 final size:120
Alignment explanation
Indices: 15520016--15520313 Score: 517
Period size: 120 Copynumber: 2.5 Consensus size: 120
15520006 AATTATTTTA
* * *
15520016 AATTTTATTAAATCATATATTTTAATTAAAATATATTTAATATTAATTAT-TTCAAATTATCTTT
1 AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTT-AAATTATATTT
15520080 TATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
65 TATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
* *
15520136 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTTT
1 AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTAAATTATATTTT
*
15520201 ATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAG
66 ATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
15520256 AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTTAAAT
1 AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATG-TTAAAT
15520314 ATGATTAAAT
Statistics
Matches: 168, Mismatches: 8, Indels: 3
0.94 0.04 0.02
Matches are distributed among these distances:
120 161 0.96
121 7 0.04
ACGTcount: A:0.43, C:0.02, G:0.05, T:0.50
Consensus pattern (120 bp):
AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTAAATTATATTTT
ATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
Found at i:15520156 original size:61 final size:61
Alignment explanation
Indices: 15520089--15520276 Score: 192
Period size: 61 Copynumber: 3.1 Consensus size: 61
15520079 TTATAGTATC
15520089 ATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAATT
1 ATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAATT
* * * * * * * *
15520150 ATATATT-TTAATT-A-T-AATAT-ATTTAATAATAATTATGTTAATTTA-TATTTTA-TAGTAT
1 ATATATTATGATTTGAGTAAAT-TCATATAAGAAT-ATTA-ATT-ATTAAGAATTTTATTA-AAT
*
15520208 C
61 T
*
15520209 ATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAGAATTTTATTAAATT
1 ATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAATT
15520270 ATATATT
1 ATATATT
15520277 TTAATTAAAA
Statistics
Matches: 96, Mismatches: 19, Indels: 24
0.69 0.14 0.17
Matches are distributed among these distances:
57 11 0.11
58 8 0.08
59 18 0.19
60 16 0.17
61 25 0.26
62 7 0.07
63 11 0.11
ACGTcount: A:0.43, C:0.02, G:0.07, T:0.49
Consensus pattern (61 bp):
ATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAATT
Found at i:15520176 original size:15 final size:15
Alignment explanation
Indices: 15520141--15520192 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
15520131 TTAAGAATTT
*
15520141 TATTAAATTAT-ATA
1 TATTTAATTATAATA
15520155 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
15520169 TATTTAATAATAAT-
1 TATTTAATTATAATA
15520183 TATGTTAATT
1 TAT-TTAATT
15520193 TATATTTTAT
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
13 8 0.25
14 8 0.25
15 16 0.50
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:15520285 original size:18 final size:17
Alignment explanation
Indices: 15520257--15520291 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
15520247 ATTATTAAGA
*
15520257 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
15520274 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
15520292 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:15520518 original size:44 final size:45
Alignment explanation
Indices: 15520453--15520543 Score: 112
Period size: 45 Copynumber: 2.0 Consensus size: 45
15520443 ACCTCTATTC
* * *
15520453 CATTCAACCAAACACAAGATTA-CTATTACGCCTCTATTCCATTA
1 CATTCAACCAAACACAAGATTAGCTATTACACCTCTAATCCAATA
*** *
15520497 CATTCAACCAAACAGTGGATTAGTTATTACACCTCTAATCCAATA
1 CATTCAACCAAACACAAGATTAGCTATTACACCTCTAATCCAATA
15520542 CA
1 CA
15520544 CCTCTAATCC
Statistics
Matches: 39, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
44 19 0.49
45 20 0.51
ACGTcount: A:0.37, C:0.27, G:0.07, T:0.29
Consensus pattern (45 bp):
CATTCAACCAAACACAAGATTAGCTATTACACCTCTAATCCAATA
Found at i:15520545 original size:16 final size:16
Alignment explanation
Indices: 15520524--15520575 Score: 104
Period size: 16 Copynumber: 3.2 Consensus size: 16
15520514 GATTAGTTAT
15520524 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
15520540 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
15520556 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
15520572 TACA
1 TACA
15520576 GCGAACCAAA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 36 1.00
ACGTcount: A:0.38, C:0.37, G:0.00, T:0.25
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:15522670 original size:22 final size:22
Alignment explanation
Indices: 15522645--15522695 Score: 66
Period size: 22 Copynumber: 2.3 Consensus size: 22
15522635 GAGCACTAAC
*
15522645 GTGCTATACAAAGAGTACGAAT
1 GTGCTAAACAAAGAGTACGAAT
** *
15522667 GTGCTAAACGGAGAGTACTAAT
1 GTGCTAAACAAAGAGTACGAAT
15522689 GTGCTAA
1 GTGCTAA
15522696 TAATCAGAGA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.37, C:0.14, G:0.25, T:0.24
Consensus pattern (22 bp):
GTGCTAAACAAAGAGTACGAAT
Found at i:15524739 original size:3 final size:3
Alignment explanation
Indices: 15524731--15524767 Score: 56
Period size: 3 Copynumber: 12.0 Consensus size: 3
15524721 TTTAATATCC
*
15524731 ATA ATA ATA ATA ATA TTA TATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA -ATA ATA ATA ATA ATA ATA
15524768 TTATTATTAT
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
3 29 0.94
4 2 0.06
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (3 bp):
ATA
Found at i:15527190 original size:19 final size:19
Alignment explanation
Indices: 15527138--15527191 Score: 65
Period size: 20 Copynumber: 2.7 Consensus size: 19
15527128 TCTACTAGAC
15527138 AAAAAGAATAACATTAATAAT
1 AAAAA-AATAA-ATTAATAAT
15527159 AAAAAAATCAAATTAA-AAT
1 AAAAAAAT-AAATTAATAAT
15527178 ACAAAAAATAAATT
1 A-AAAAAATAAATT
15527192 CCATCATAAA
Statistics
Matches: 31, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
19 9 0.29
20 15 0.48
21 7 0.23
ACGTcount: A:0.70, C:0.06, G:0.02, T:0.22
Consensus pattern (19 bp):
AAAAAAATAAATTAATAAT
Found at i:15535642 original size:20 final size:20
Alignment explanation
Indices: 15535602--15535657 Score: 69
Period size: 20 Copynumber: 2.7 Consensus size: 20
15535592 GTTATACGTT
15535602 TAAAAATTAAAATTAATTTAAA
1 TAAAAATT-AAATT-ATTTAAA
15535624 TAAAAATTAAATTATTTAAA
1 TAAAAATTAAATTATTTAAA
*
15535644 -AAATAATAAAATTA
1 TAAA-AATTAAATTA
15535658 AATTTCTTCA
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
19 3 0.09
20 16 0.50
21 5 0.16
22 8 0.25
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (20 bp):
TAAAAATTAAATTATTTAAA
Found at i:15539781 original size:34 final size:34
Alignment explanation
Indices: 15539739--15539808 Score: 140
Period size: 34 Copynumber: 2.1 Consensus size: 34
15539729 TATTTTAAAC
15539739 ATAAATAACTCGTGGTAAGAAGCATGAATAGTCA
1 ATAAATAACTCGTGGTAAGAAGCATGAATAGTCA
15539773 ATAAATAACTCGTGGTAAGAAGCATGAATAGTCA
1 ATAAATAACTCGTGGTAAGAAGCATGAATAGTCA
15539807 AT
1 AT
15539809 GGAATAGTCA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 36 1.00
ACGTcount: A:0.44, C:0.11, G:0.20, T:0.24
Consensus pattern (34 bp):
ATAAATAACTCGTGGTAAGAAGCATGAATAGTCA
Found at i:15547566 original size:26 final size:26
Alignment explanation
Indices: 15547519--15547568 Score: 66
Period size: 26 Copynumber: 1.9 Consensus size: 26
15547509 ATAGAAAAAA
* *
15547519 TAAAAATAATTATCAAATTTAATTCT
1 TAAAAAAAATTATCAAACTTAATTCT
15547545 TAAAAAAAATT-TCAAACCTTAATT
1 TAAAAAAAATTATCAAA-CTTAATT
15547569 TGGAAAAAGT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
25 5 0.24
26 16 0.76
ACGTcount: A:0.52, C:0.10, G:0.00, T:0.38
Consensus pattern (26 bp):
TAAAAAAAATTATCAAACTTAATTCT
Found at i:15548858 original size:7 final size:7
Alignment explanation
Indices: 15548848--15548899 Score: 58
Period size: 7 Copynumber: 7.9 Consensus size: 7
15548838 AGATTTTTAA
*
15548848 TTTTCAT
1 TTTTCCT
15548855 TTTTCCT
1 TTTTCCT
15548862 TTTT--T
1 TTTTCCT
15548867 TCTTT--T
1 T-TTTCCT
15548873 TTTTCCT
1 TTTTCCT
15548880 TTTTCCT
1 TTTTCCT
15548887 TTTTCCT
1 TTTTCCT
15548894 TTTTCC
1 TTTTCC
15548900 CATTTCCCCA
Statistics
Matches: 41, Mismatches: 1, Indels: 6
0.85 0.02 0.12
Matches are distributed among these distances:
5 5 0.12
6 5 0.12
7 31 0.76
ACGTcount: A:0.02, C:0.23, G:0.00, T:0.75
Consensus pattern (7 bp):
TTTTCCT
Found at i:15548868 original size:9 final size:9
Alignment explanation
Indices: 15548854--15548883 Score: 51
Period size: 9 Copynumber: 3.3 Consensus size: 9
15548844 TTAATTTTCA
15548854 TTTTTCCTT
1 TTTTTCCTT
*
15548863 TTTTTCTTT
1 TTTTTCCTT
15548872 TTTTTCCTT
1 TTTTTCCTT
15548881 TTT
1 TTT
15548884 CCTTTTTCCT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (9 bp):
TTTTTCCTT
Found at i:15548890 original size:18 final size:18
Alignment explanation
Indices: 15548854--15548890 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
15548844 TTAATTTTCA
*
15548854 TTTTTCCTTTTTTTCTTT
1 TTTTTCCTTTTTCTCTTT
15548872 TTTTTCCTTTTTC-CTTT
1 TTTTTCCTTTTTCTCTTT
15548889 TT
1 TT
15548891 CCTTTTTCCC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 6 0.33
18 12 0.67
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (18 bp):
TTTTTCCTTTTTCTCTTT
Found at i:15548897 original size:25 final size:25
Alignment explanation
Indices: 15548848--15548897 Score: 75
Period size: 25 Copynumber: 2.0 Consensus size: 25
15548838 AGATTTTTAA
*
15548848 TTTTCATTTTTCCTTTTTTTCTTTT
1 TTTTCATTTTTCCTTTTTCTCTTTT
*
15548873 TTTTCCTTTTTCCTTTTTC-CTTTT
1 TTTTCATTTTTCCTTTTTCTCTTTT
15548897 T
1 T
15548898 CCCATTTCCC
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 6 0.26
25 17 0.74
ACGTcount: A:0.02, C:0.20, G:0.00, T:0.78
Consensus pattern (25 bp):
TTTTCATTTTTCCTTTTTCTCTTTT
Found at i:15549477 original size:26 final size:25
Alignment explanation
Indices: 15549430--15549478 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 25
15549420 CTCGGTGGAG
*
15549430 TGGATACGCGACTCGGACGATGGGT
1 TGGATACGCGAATCGGACGATGGGT
15549455 TGGATGACGCTGAATCGGA-GATGG
1 TGGAT-ACGC-GAATCGGACGATGG
15549479 TGCCACCACA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
25 5 0.24
26 9 0.43
27 7 0.33
ACGTcount: A:0.22, C:0.16, G:0.41, T:0.20
Consensus pattern (25 bp):
TGGATACGCGAATCGGACGATGGGT
Found at i:15551855 original size:20 final size:21
Alignment explanation
Indices: 15551830--15551874 Score: 76
Period size: 20 Copynumber: 2.2 Consensus size: 21
15551820 ACAAAAATTA
15551830 TAAAAAATT-AAAATAATTTT
1 TAAAAAATTCAAAATAATTTT
15551850 T-AAAAATTCAAAATAATTTT
1 TAAAAAATTCAAAATAATTTT
15551870 TAAAA
1 TAAAA
15551875 TTCCAAATAT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
19 7 0.30
20 13 0.57
21 3 0.13
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (21 bp):
TAAAAAATTCAAAATAATTTT
Found at i:15551881 original size:20 final size:20
Alignment explanation
Indices: 15551832--15551892 Score: 83
Period size: 19 Copynumber: 3.2 Consensus size: 20
15551822 AAAAATTATA
15551832 AAAAATT-AAAATAATTTTT
1 AAAAATTCAAAATAATTTTT
15551851 AAAAATTCAAAATAATTTTT
1 AAAAATTCAAAATAATTTTT
* *
15551871 -AAAATTCCAAAT-ATTTAT
1 AAAAATTCAAAATAATTTTT
15551889 AAAA
1 AAAA
15551893 CTTCTAAATT
Statistics
Matches: 38, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
18 5 0.13
19 21 0.55
20 12 0.32
ACGTcount: A:0.57, C:0.05, G:0.00, T:0.38
Consensus pattern (20 bp):
AAAAATTCAAAATAATTTTT
Found at i:15564337 original size:19 final size:18
Alignment explanation
Indices: 15564283--15564341 Score: 55
Period size: 19 Copynumber: 3.1 Consensus size: 18
15564273 TTTCTATACT
15564283 TTTATTCAGATTAAAATGTC
1 TTTATTCAGATT-AAATG-C
* * * *
15564303 ATTAGTAAGCTTAAATGC
1 TTTATTCAGATTAAATGC
15564321 TTTATTCAGATTGAAATGC
1 TTTATTCAGATT-AAATGC
15564340 TT
1 TT
15564342 ATGCAAACTT
Statistics
Matches: 30, Mismatches: 8, Indels: 3
0.73 0.20 0.07
Matches are distributed among these distances:
18 9 0.30
19 13 0.43
20 8 0.27
ACGTcount: A:0.34, C:0.10, G:0.14, T:0.42
Consensus pattern (18 bp):
TTTATTCAGATTAAATGC
Found at i:15566566 original size:23 final size:23
Alignment explanation
Indices: 15566539--15566591 Score: 97
Period size: 23 Copynumber: 2.3 Consensus size: 23
15566529 AGTGTTATTG
15566539 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
*
15566562 TTCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
15566585 ATCAGTG
1 ATCAGTG
15566592 TGGCACTTAT
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:0.21, C:0.21, G:0.26, T:0.32
Consensus pattern (23 bp):
ATCAGTGGTAGCTTCGGCTACAT
Found at i:15566763 original size:38 final size:37
Alignment explanation
Indices: 15566721--15566793 Score: 103
Period size: 38 Copynumber: 1.9 Consensus size: 37
15566711 ATGTGTGGAA
* *
15566721 TTGAATTGAATATTGACTTGAAAA-TGGAAAAGTGAATT
1 TTGAATTGAATAGTGA-TT-AAAAGTGAAAAAGTGAATT
15566759 TTGAATTGAATAGTGATTAAAAGTGAAAAAGTGAA
1 TTGAATTGAATAGTGATTAAAAGTGAAAAAGTGAA
15566794 ATTATGAAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
36 4 0.12
37 13 0.41
38 15 0.47
ACGTcount: A:0.45, C:0.01, G:0.22, T:0.32
Consensus pattern (37 bp):
TTGAATTGAATAGTGATTAAAAGTGAAAAAGTGAATT
Found at i:15596670 original size:21 final size:21
Alignment explanation
Indices: 15596641--15596680 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
15596631 AAAATTTTAT
15596641 TTATCTATTT-TTATTTAAAAA
1 TTATCTATTTATT-TTTAAAAA
*
15596662 TTATTTATTTATTTTTAAA
1 TTATCTATTTATTTTTAAA
15596681 TTTTAAAATT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 15 0.88
22 2 0.12
ACGTcount: A:0.35, C:0.03, G:0.00, T:0.62
Consensus pattern (21 bp):
TTATCTATTTATTTTTAAAAA
Found at i:15596674 original size:25 final size:26
Alignment explanation
Indices: 15596626--15596678 Score: 81
Period size: 25 Copynumber: 2.1 Consensus size: 26
15596616 ATTTTTCTTA
*
15596626 TATTTAAAATTTTATTTATCTATTTT
1 TATTTAAAATATTATTTATCTATTTT
*
15596652 TATTTAAAA-ATTATTTATTTATTTT
1 TATTTAAAATATTATTTATCTATTTT
15596677 TA
1 TA
15596679 AATTTTAAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
25 16 0.64
26 9 0.36
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.64
Consensus pattern (26 bp):
TATTTAAAATATTATTTATCTATTTT
Found at i:15598028 original size:17 final size:17
Alignment explanation
Indices: 15598006--15598044 Score: 60
Period size: 17 Copynumber: 2.3 Consensus size: 17
15597996 ATTGGGTTAG
* *
15598006 TTTTTTTTTTCTTTTCC
1 TTTTTTTTATCCTTTCC
15598023 TTTTTTTTATCCTTTCC
1 TTTTTTTTATCCTTTCC
15598040 TTTTT
1 TTTTT
15598045 GTATAAGAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.03, C:0.18, G:0.00, T:0.79
Consensus pattern (17 bp):
TTTTTTTTATCCTTTCC
Found at i:15598127 original size:3 final size:3
Alignment explanation
Indices: 15598119--15598148 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
15598109 ATTCATTGTT
15598119 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
15598149 AATCTATGAC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:15613664 original size:24 final size:24
Alignment explanation
Indices: 15613637--15613682 Score: 67
Period size: 24 Copynumber: 1.9 Consensus size: 24
15613627 AACACAATTC
15613637 TAATCAAA-GTCAAATATATTATGT
1 TAAT-AAATGTCAAATATATTATGT
*
15613661 TAATAAATGTTAAATATATTAT
1 TAATAAATGTCAAATATATTAT
15613683 ACTCATAAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 3 0.15
24 17 0.85
ACGTcount: A:0.48, C:0.04, G:0.07, T:0.41
Consensus pattern (24 bp):
TAATAAATGTCAAATATATTATGT
Found at i:15613698 original size:24 final size:24
Alignment explanation
Indices: 15613648--15613699 Score: 59
Period size: 24 Copynumber: 2.2 Consensus size: 24
15613638 AATCAAAGTC
** **
15613648 AAATATATTATGTTAATAAATGTT
1 AAATATATTATACTAATAAATACT
*
15613672 AAATATATTATACTCATAAATACT
1 AAATATATTATACTAATAAATACT
15613696 AAAT
1 AAAT
15613700 CTTCTAGAAA
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.50, C:0.06, G:0.04, T:0.40
Consensus pattern (24 bp):
AAATATATTATACTAATAAATACT
Found at i:15621486 original size:19 final size:21
Alignment explanation
Indices: 15621464--15621507 Score: 58
Period size: 19 Copynumber: 2.2 Consensus size: 21
15621454 TAAATATGAA
15621464 AAAAAT-TAAGTAC-AAAAAG
1 AAAAATGTAAGTACGAAAAAG
*
15621483 -AAAATGTAAGTACGAAAATG
1 AAAAATGTAAGTACGAAAAAG
15621503 AAAAA
1 AAAAA
15621508 ACCGATATAT
Statistics
Matches: 21, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
18 5 0.24
19 7 0.33
20 5 0.24
21 4 0.19
ACGTcount: A:0.66, C:0.05, G:0.14, T:0.16
Consensus pattern (21 bp):
AAAAATGTAAGTACGAAAAAG
Found at i:15627204 original size:11 final size:11
Alignment explanation
Indices: 15627159--15627204 Score: 56
Period size: 11 Copynumber: 4.2 Consensus size: 11
15627149 TCTACTACTG
*
15627159 TTTTGTTATCA
1 TTTTGTTATTA
*
15627170 TTTTGCTATTA
1 TTTTGTTATTA
* *
15627181 TATTATTATTA
1 TTTTGTTATTA
15627192 TTTTGTTATTA
1 TTTTGTTATTA
15627203 TT
1 TT
15627205 ATTTAAATAT
Statistics
Matches: 28, Mismatches: 7, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
11 28 1.00
ACGTcount: A:0.22, C:0.04, G:0.07, T:0.67
Consensus pattern (11 bp):
TTTTGTTATTA
Found at i:15630638 original size:41 final size:41
Alignment explanation
Indices: 15630588--15630859 Score: 384
Period size: 41 Copynumber: 6.6 Consensus size: 41
15630578 TTAATTTAAA
** *
15630588 CAGATTCACCGGCACTTAGCCTATTAGGCTTA-AAGCCTGATT
1 CAGA-TCACCGGCACTTAGCCTGCTAGGCTTATAA-CCTGGTT
* * * *
15630630 CAGATCACCGACACTTATCCTGCTAGGCTTATAGCCTGCTT
1 CAGATCACCGGCACTTAGCCTGCTAGGCTTATAACCTGGTT
**
15630671 CAGATCACCAACACTTAGCCTGCTAGGCTTATAACCTGGTT
1 CAGATCACCGGCACTTAGCCTGCTAGGCTTATAACCTGGTT
*
15630712 CAGATCACCGGCACTTAGCCTGGTAGGCTTATAACCTGGTT
1 CAGATCACCGGCACTTAGCCTGCTAGGCTTATAACCTGGTT
* * **
15630753 CAGATCACCGACACTTAGCCTGCTAGGCTTATAGCCTAATT
1 CAGATCACCGGCACTTAGCCTGCTAGGCTTATAACCTGGTT
*
15630794 CAGATCACCAGCACTTAGCCTGCTAGGCTTATAACCTGGTT
1 CAGATCACCGGCACTTAGCCTGCTAGGCTTATAACCTGGTT
15630835 CAGATCACCGGCACTTAGCCTGCTA
1 CAGATCACCGGCACTTAGCCTGCTA
15630860 AACATAAAGG
Statistics
Matches: 205, Mismatches: 24, Indels: 3
0.88 0.10 0.01
Matches are distributed among these distances:
41 200 0.98
42 5 0.02
ACGTcount: A:0.25, C:0.29, G:0.19, T:0.27
Consensus pattern (41 bp):
CAGATCACCGGCACTTAGCCTGCTAGGCTTATAACCTGGTT
Found at i:15630812 original size:123 final size:123
Alignment explanation
Indices: 15630588--15630856 Score: 450
Period size: 123 Copynumber: 2.2 Consensus size: 123
15630578 TTAATTTAAA
** *
15630588 CAGATTCACCGGCACTTAGCCTATTAGGCTTAAAGCCTGATTCAGATCACCGACACTTATCCTGC
1 CAGA-TCACCGGCACTTAGCCTGGTAGGCTTAAAGCCTGATTCAGATCACCGACACTTAGCCTGC
**
15630653 TAGGCTTATAGCCTGCTTCAGATCACCAACACTTAGCCTGCTAGGCTTATAACCTGGTT
65 TAGGCTTATAGCCTAATTCAGATCACCAACACTTAGCCTGCTAGGCTTATAACCTGGTT
*
15630712 CAGATCACCGGCACTTAGCCTGGTAGGCTTATAA-CCTGGTTCAGATCACCGACACTTAGCCTGC
1 CAGATCACCGGCACTTAGCCTGGTAGGCTTA-AAGCCTGATTCAGATCACCGACACTTAGCCTGC
*
15630776 TAGGCTTATAGCCTAATTCAGATCACCAGCACTTAGCCTGCTAGGCTTATAACCTGGTT
65 TAGGCTTATAGCCTAATTCAGATCACCAACACTTAGCCTGCTAGGCTTATAACCTGGTT
15630835 CAGATCACCGGCACTTAGCCTG
1 CAGATCACCGGCACTTAGCCTG
15630857 CTAAACATAA
Statistics
Matches: 137, Mismatches: 7, Indels: 3
0.93 0.05 0.02
Matches are distributed among these distances:
123 131 0.96
124 6 0.04
ACGTcount: A:0.25, C:0.29, G:0.19, T:0.27
Consensus pattern (123 bp):
CAGATCACCGGCACTTAGCCTGGTAGGCTTAAAGCCTGATTCAGATCACCGACACTTAGCCTGCT
AGGCTTATAGCCTAATTCAGATCACCAACACTTAGCCTGCTAGGCTTATAACCTGGTT
Found at i:15631373 original size:76 final size:75
Alignment explanation
Indices: 15631164--15631376 Score: 191
Period size: 76 Copynumber: 2.8 Consensus size: 75
15631154 TACATTTAAC
* * **
15631164 ATTCAAATCTCACATATACCTATATAATTTCATACCCCAT-TTCAATATAA-C-TTATACATGTA
1 ATTCAAATCTAACATATACATATATAATTTCATA-CTTATATTCAATATAAGCATTATACATGTA
* *
15631226 CATATATACAT
65 CACACATACAT
* * * * * *
15631237 ATTCAAATCTAACATATATACATGTATAATTTTATACTTACATTCGAA-ACAAGTACTTATACTT
1 ATTCAAATCTAAC--ATATACATATATAATTTCATACTTATATTC-AATATAAGCA-TTATACAT
*
15631301 GTATACACATACAT
62 GTACACACATACAT
* * * *
15631315 TTTCGAATTTAACATATACATATATAATTTCATACTTATACTCAATATAAGCAATTATACAT
1 ATTCAAATCTAACATATACATATATAATTTCATACTTATATTCAATATAAGC-ATTATACAT
15631377 ATATATACAT
Statistics
Matches: 108, Mismatches: 23, Indels: 15
0.74 0.16 0.10
Matches are distributed among these distances:
73 12 0.11
74 2 0.02
75 26 0.24
76 39 0.36
77 1 0.01
78 28 0.26
ACGTcount: A:0.41, C:0.18, G:0.03, T:0.38
Consensus pattern (75 bp):
ATTCAAATCTAACATATACATATATAATTTCATACTTATATTCAATATAAGCATTATACATGTAC
ACACATACAT
Found at i:15631598 original size:153 final size:156
Alignment explanation
Indices: 15631423--15631774 Score: 403
Period size: 153 Copynumber: 2.3 Consensus size: 156
15631413 TATATTATAC
* * * * *
15631423 ATATATATATGTAACATCCATACTTTTAA-TAAAATCCAATAATTTGTACTCA-TATATACATAC
1 ATATATAAATATAACATACATACTTTTAACTAAAATCCAAGAA-TT-TACTCAGTACATACATAC
* * * * *
15631486 CTATTCGAACCTCTTGTAAACATATATAACATTCA-AC-ATTAACTAAATTCAA-AACTTATTCA
64 ATATCCGAACCTCTTATAAACAAATATAACATACATACTATTAACTAAATTCAAGAACTTATTCA
* *
15631548 TGTATGTACACATATATCCGAACTTTAT
129 TGTATATACAAATATATCCGAACTTTAT
* * *
15631576 ATATATAAATATAACATACATACTTTTAACT-AAATTCAAGAATTTATTCATGTACATACATATA
1 ATATATAAATATAACATACATACTTTTAACTAAAATCCAAGAATTTACTCA-GTACATACATACA
* * * * * *
15631640 TATCCGAACTTTTTATATATAAATATAACATACATACTTTTAACTAAATTCAAGAATTTATTCAT
65 TATCCGAACCTCTTATAAACAAATATAACATACATACTATTAACTAAATTCAAGAACTTATTCAT
* *
15631705 GTATATACAAATATATCTGAACTTTGT
130 GTATATACAAATATATCCGAACTTTAT
*
15631732 ATATATAAATATTAACATACATACTTTTAACT-AAATTCAAGAA
1 ATATATAAATA-TAACATACATACTTTTAACTAAAATCCAAGAA
15631775 CTTATACATG
Statistics
Matches: 169, Mismatches: 23, Indels: 10
0.84 0.11 0.05
Matches are distributed among these distances:
151 5 0.03
152 2 0.01
153 70 0.41
154 3 0.02
155 14 0.08
156 44 0.26
157 31 0.18
ACGTcount: A:0.43, C:0.15, G:0.04, T:0.38
Consensus pattern (156 bp):
ATATATAAATATAACATACATACTTTTAACTAAAATCCAAGAATTTACTCAGTACATACATACAT
ATCCGAACCTCTTATAAACAAATATAACATACATACTATTAACTAAATTCAAGAACTTATTCATG
TATATACAAATATATCCGAACTTTAT
Found at i:15631644 original size:78 final size:78
Alignment explanation
Indices: 15631524--15631802 Score: 443
Period size: 78 Copynumber: 3.6 Consensus size: 78
15631514 ACATTCAACA
* *
15631524 TTAACTAAATTCAA-AACTTATTCATGTATGTACACATATATCCGAACTTTATATATATAAATAT
1 TTAACTAAATTCAAGAACTTATTCATGTATATACATATATATCCGAACTTTATATATATAAATAT
15631588 AACATACATACTT
66 AACATACATACTT
* * *
15631601 TTAACTAAATTCAAGAATTTATTCATGTACATACATATATATCCGAACTTTTTATATATAAATAT
1 TTAACTAAATTCAAGAACTTATTCATGTATATACATATATATCCGAACTTTATATATATAAATAT
15631666 AACATACATACTT
66 AACATACATACTT
* * * *
15631679 TTAACTAAATTCAAGAATTTATTCATGTATATACAAATATATCTGAACTTTGTATATATAAATAT
1 TTAACTAAATTCAAGAACTTATTCATGTATATACATATATATCCGAACTTTATATATATAAATA-
15631744 TAACATACATACTT
65 TAACATACATACTT
*
15631758 TTAACTAAATTCAAGAACTTATACATGTATATACATATAGTATCC
1 TTAACTAAATTCAAGAACTTATTCATGTATATACATATA-TATCC
15631803 ACTATTAGTT
Statistics
Matches: 186, Mismatches: 13, Indels: 3
0.92 0.06 0.01
Matches are distributed among these distances:
77 14 0.08
78 118 0.63
79 50 0.27
80 4 0.02
ACGTcount: A:0.43, C:0.14, G:0.05, T:0.39
Consensus pattern (78 bp):
TTAACTAAATTCAAGAACTTATTCATGTATATACATATATATCCGAACTTTATATATATAAATAT
AACATACATACTT
Found at i:15637378 original size:6 final size:6
Alignment explanation
Indices: 15637363--15637404 Score: 57
Period size: 6 Copynumber: 7.0 Consensus size: 6
15637353 TGGTGGGGGA
* * *
15637363 GGTGGT GGTGGC GGTGGC GGTGGC GGTGGA GGTGGG GGTGGC
1 GGTGGC GGTGGC GGTGGC GGTGGC GGTGGC GGTGGC GGTGGC
15637405 AAAGGAGGTG
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
6 32 1.00
ACGTcount: A:0.02, C:0.10, G:0.69, T:0.19
Consensus pattern (6 bp):
GGTGGC
Found at i:15637378 original size:12 final size:12
Alignment explanation
Indices: 15637351--15637403 Score: 61
Period size: 12 Copynumber: 4.4 Consensus size: 12
15637341 TGGCGGCTTA
* *
15637351 GGTGGTGGGGGA
1 GGTGGTGGTGGC
15637363 GGTGGTGGTGGC
1 GGTGGTGGTGGC
*
15637375 GGTGGCGGTGGC
1 GGTGGTGGTGGC
* *
15637387 GGTGGAGGTGGG
1 GGTGGTGGTGGC
15637399 GGTGG
1 GGTGG
15637404 CAAAGGAGGT
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
12 36 1.00
ACGTcount: A:0.04, C:0.06, G:0.72, T:0.19
Consensus pattern (12 bp):
GGTGGTGGTGGC
Found at i:15639736 original size:34 final size:35
Alignment explanation
Indices: 15639692--15639758 Score: 100
Period size: 34 Copynumber: 1.9 Consensus size: 35
15639682 CAGTAAAATA
*
15639692 TTTTCCGTAAAATGATTT-CGGGAAAATGTTTTAC
1 TTTTCCGTAAAATGATTTACGGGAAAATATTTTAC
* *
15639726 TTTTCTGTAAAATGATTTACTGGAAAATATTTT
1 TTTTCCGTAAAATGATTTACGGGAAAATATTTT
15639759 CTGATGTTTG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
34 17 0.59
35 12 0.41
ACGTcount: A:0.31, C:0.09, G:0.15, T:0.45
Consensus pattern (35 bp):
TTTTCCGTAAAATGATTTACGGGAAAATATTTTAC
Found at i:15645941 original size:2 final size:2
Alignment explanation
Indices: 15645934--15645959 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
15645924 GACAAACATT
15645934 CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA
15645960 AAAATCAGAC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.50, G:0.00, T:0.00
Consensus pattern (2 bp):
CA
Found at i:15650691 original size:6 final size:6
Alignment explanation
Indices: 15650680--15650704 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
15650670 TTAAAACCGG
15650680 AATTAA AATTAA AATTAA AATTAA A
1 AATTAA AATTAA AATTAA AATTAA A
15650705 TGGAATAACT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (6 bp):
AATTAA
Found at i:15655427 original size:37 final size:37
Alignment explanation
Indices: 15655386--15655561 Score: 298
Period size: 37 Copynumber: 4.8 Consensus size: 37
15655376 TTTGAGTACT
15655386 TCTGATCAAGAAACAAAGTGATAAGTGGCTACACTTA
1 TCTGATCAAGAAACAAAGTGATAAGTGGCTACACTTA
*
15655423 TCTGATCAAGAAACAAAGTGATAAGTGGTTACACTTA
1 TCTGATCAAGAAACAAAGTGATAAGTGGCTACACTTA
*
15655460 TCTGATCAAGAAACAAAGTGATAAGTGGTTACACTTA
1 TCTGATCAAGAAACAAAGTGATAAGTGGCTACACTTA
*
15655497 TCTGATCAAGAGACAAAGTGATAAGTGGCTACACTTA
1 TCTGATCAAGAAACAAAGTGATAAGTGGCTACACTTA
** *
15655534 TCTGATCAAGTGATAAAGTGATAAGTGG
1 TCTGATCAAGAAACAAAGTGATAAGTGG
15655562 TAGCTTCAGC
Statistics
Matches: 134, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
37 134 1.00
ACGTcount: A:0.39, C:0.14, G:0.21, T:0.26
Consensus pattern (37 bp):
TCTGATCAAGAAACAAAGTGATAAGTGGCTACACTTA
Found at i:15655633 original size:45 final size:46
Alignment explanation
Indices: 15655524--15655647 Score: 200
Period size: 46 Copynumber: 2.8 Consensus size: 46
15655514 GTGATAAGTG
* *
15655524 GCTACACTTATCTGATCAAGTGATAAAGTGATAAGTGGTAGCTTCA
1 GCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGCCTCA
*
15655570 GCTACACTTATCTGATCAAGTGGCAAAGTGATAAGTGGTAGCCT-A
1 GCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGCCTCA
15655615 GCTACACTTATCTGATCAAG-GAC-AAGTGATAAG
1 GCTACACTTATCTGATCAAGTGACAAAGTGATAAG
15655648 AGGTCATATG
Statistics
Matches: 74, Mismatches: 4, Indels: 3
0.91 0.05 0.04
Matches are distributed among these distances:
43 10 0.14
44 2 0.03
45 21 0.28
46 41 0.55
ACGTcount: A:0.33, C:0.17, G:0.23, T:0.27
Consensus pattern (46 bp):
GCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGCCTCA
Found at i:15668409 original size:18 final size:19
Alignment explanation
Indices: 15668382--15668417 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
15668372 GGATATAATA
15668382 AATTAATTATT-TTAAAAG
1 AATTAATTATTATTAAAAG
*
15668400 AATTATTTATTATTAAAA
1 AATTAATTATTATTAAAA
15668418 ATTAACATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 10 0.62
19 6 0.38
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (19 bp):
AATTAATTATTATTAAAAG
Found at i:15674532 original size:20 final size:20
Alignment explanation
Indices: 15674507--15674544 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
15674497 TATGTTTAAA
15674507 ATGTTA-CATTTTAGTTACTT
1 ATGTTATCATTTT-GTTACTT
15674527 ATGTTATCATTTTGTTAC
1 ATGTTATCATTTTGTTAC
15674545 GAAGCGGTCA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
20 11 0.65
21 6 0.35
ACGTcount: A:0.24, C:0.11, G:0.11, T:0.55
Consensus pattern (20 bp):
ATGTTATCATTTTGTTACTT
Found at i:15681456 original size:21 final size:20
Alignment explanation
Indices: 15681431--15681480 Score: 50
Period size: 19 Copynumber: 2.5 Consensus size: 20
15681421 ATCCAATACA
15681431 CATTTCAATACCACAATAAT-T
1 CATTTCAAT-CCA-AATAATAT
*
15681452 CATTT-AATTCAAATAATAT
1 CATTTCAATCCAAATAATAT
15681471 CATTTGCAAT
1 CATTT-CAAT
15681481 TTCCATTTAA
Statistics
Matches: 25, Mismatches: 1, Indels: 6
0.78 0.03 0.19
Matches are distributed among these distances:
18 6 0.24
19 8 0.32
20 3 0.12
21 8 0.32
ACGTcount: A:0.42, C:0.18, G:0.02, T:0.38
Consensus pattern (20 bp):
CATTTCAATCCAAATAATAT
Found at i:15682954 original size:23 final size:22
Alignment explanation
Indices: 15682911--15682954 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 22
15682901 TTCTAAGTCG
15682911 ATATTCAATTCAATTCCACACCT
1 ATATTCAATTCAATT-CACACCT
15682934 ATATTCATTATTCAATT-ACAC
1 ATATTCA--ATTCAATTCACAC
15682955 TTAGTCAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
23 11 0.58
25 8 0.42
ACGTcount: A:0.36, C:0.25, G:0.00, T:0.39
Consensus pattern (22 bp):
ATATTCAATTCAATTCACACCT
Found at i:15683106 original size:51 final size:50
Alignment explanation
Indices: 15683043--15683187 Score: 175
Period size: 50 Copynumber: 2.9 Consensus size: 50
15683033 TCAATGATGT
* *
15683043 TCGGTTCACATAGTAGCCTGCACATAGTACTACACACGTGATCGAAACTATC
1 TCGGTACACATAGTAGCCTGCACATAGTACTACACACGTGA-CCAAAC-ATC
* * * * * *
15683095 T-GGTACGCATAGTAGCCTGCACATAGTACTACACATGCGACCCATCATT
1 TCGGTACACATAGTAGCCTGCACATAGTACTACACACGTGACCAAACATC
* *
15683144 TCGGTACACGTAGTAGCCTGCACATTGTACTACACACGTGACCA
1 TCGGTACACATAGTAGCCTGCACATAGTACTACACACGTGACCA
15683188 TCACTTTCAC
Statistics
Matches: 78, Mismatches: 14, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
49 3 0.04
50 39 0.50
51 35 0.45
52 1 0.01
ACGTcount: A:0.29, C:0.28, G:0.19, T:0.24
Consensus pattern (50 bp):
TCGGTACACATAGTAGCCTGCACATAGTACTACACACGTGACCAAACATC
Found at i:15684124 original size:11 final size:11
Alignment explanation
Indices: 15684088--15684117 Score: 60
Period size: 11 Copynumber: 2.7 Consensus size: 11
15684078 TTTTCAAACA
15684088 AAATTTTCACG
1 AAATTTTCACG
15684099 AAATTTTCACG
1 AAATTTTCACG
15684110 AAATTTTC
1 AAATTTTC
15684118 GTGAAATCGT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.37, C:0.17, G:0.07, T:0.40
Consensus pattern (11 bp):
AAATTTTCACG
Found at i:15687833 original size:23 final size:23
Alignment explanation
Indices: 15687801--15687855 Score: 65
Period size: 23 Copynumber: 2.4 Consensus size: 23
15687791 CATGCATGCC
*
15687801 AACACGTATGCTATCCTAAACTT
1 AACACATATGCTATCCTAAACTT
* * * *
15687824 CACACATATGCTGTTCTAGACTT
1 AACACATATGCTATCCTAAACTT
15687847 AACACATAT
1 AACACATAT
15687856 TCGCTGGTTC
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.35, C:0.25, G:0.09, T:0.31
Consensus pattern (23 bp):
AACACATATGCTATCCTAAACTT
Found at i:15688018 original size:23 final size:23
Alignment explanation
Indices: 15687986--15688040 Score: 65
Period size: 23 Copynumber: 2.4 Consensus size: 23
15687976 CATGCATGCC
*
15687986 AACACGTATGCTATCCTAAACTT
1 AACACATATGCTATCCTAAACTT
* * * *
15688009 CACACATATGCTGTTCTAGACTT
1 AACACATATGCTATCCTAAACTT
15688032 AACACATAT
1 AACACATAT
15688041 TCGCTGGTTC
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.35, C:0.25, G:0.09, T:0.31
Consensus pattern (23 bp):
AACACATATGCTATCCTAAACTT
Found at i:15688099 original size:185 final size:185
Alignment explanation
Indices: 15687787--15688160 Score: 748
Period size: 185 Copynumber: 2.0 Consensus size: 185
15687777 TCTTAGGTAG
15687787 GTTCCATGCATGCCAACACGTATGCTATCCTAAACTTCACACATATGCTGTTCTAGACTTAACAC
1 GTTCCATGCATGCCAACACGTATGCTATCCTAAACTTCACACATATGCTGTTCTAGACTTAACAC
15687852 ATATTCGCTGGTTCACTTGTTTGACTTTATACCTTCTACCTTCGAACACCTATAGGGACATGTGA
66 ATATTCGCTGGTTCACTTGTTTGACTTTATACCTTCTACCTTCGAACACCTATAGGGACATGTGA
15687917 ACTAGGCTTATGAGCCCTCCTCTTGAGCCCCTAATATACAAGTCGCGAGTTGATA
131 ACTAGGCTTATGAGCCCTCCTCTTGAGCCCCTAATATACAAGTCGCGAGTTGATA
15687972 GTTCCATGCATGCCAACACGTATGCTATCCTAAACTTCACACATATGCTGTTCTAGACTTAACAC
1 GTTCCATGCATGCCAACACGTATGCTATCCTAAACTTCACACATATGCTGTTCTAGACTTAACAC
15688037 ATATTCGCTGGTTCACTTGTTTGACTTTATACCTTCTACCTTCGAACACCTATAGGGACATGTGA
66 ATATTCGCTGGTTCACTTGTTTGACTTTATACCTTCTACCTTCGAACACCTATAGGGACATGTGA
15688102 ACTAGGCTTATGAGCCCTCCTCTTGAGCCCCTAATATACAAGTCGCGAGTTGATA
131 ACTAGGCTTATGAGCCCTCCTCTTGAGCCCCTAATATACAAGTCGCGAGTTGATA
15688157 GTTC
1 GTTC
15688161 AGATTATGTT
Statistics
Matches: 189, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
185 189 1.00
ACGTcount: A:0.26, C:0.26, G:0.16, T:0.32
Consensus pattern (185 bp):
GTTCCATGCATGCCAACACGTATGCTATCCTAAACTTCACACATATGCTGTTCTAGACTTAACAC
ATATTCGCTGGTTCACTTGTTTGACTTTATACCTTCTACCTTCGAACACCTATAGGGACATGTGA
ACTAGGCTTATGAGCCCTCCTCTTGAGCCCCTAATATACAAGTCGCGAGTTGATA
Found at i:15690634 original size:10 final size:10
Alignment explanation
Indices: 15690619--15690643 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
15690609 AGTAGTTATT
15690619 TTTCTGTTAC
1 TTTCTGTTAC
15690629 TTTCTGTTAC
1 TTTCTGTTAC
15690639 TTTCT
1 TTTCT
15690644 TTCCTTGCTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.08, C:0.20, G:0.08, T:0.64
Consensus pattern (10 bp):
TTTCTGTTAC
Found at i:15694951 original size:10 final size:10
Alignment explanation
Indices: 15694936--15694960 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
15694926 AGTAGTTATT
15694936 TTTCTGTTAC
1 TTTCTGTTAC
15694946 TTTCTGTTAC
1 TTTCTGTTAC
15694956 TTTCT
1 TTTCT
15694961 TTCCTTGCTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.08, C:0.20, G:0.08, T:0.64
Consensus pattern (10 bp):
TTTCTGTTAC
Found at i:15701025 original size:21 final size:21
Alignment explanation
Indices: 15700999--15701039 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
15700989 AGACGAGCAA
* *
15700999 TACTCCACAGCAGGTGGAGTG
1 TACTCCAAAACAGGTGGAGTG
15701020 TACTCCAAAACAGGTGGAGT
1 TACTCCAAAACAGGTGGAGT
15701040 TTGAGCAGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.29, C:0.22, G:0.29, T:0.20
Consensus pattern (21 bp):
TACTCCAAAACAGGTGGAGTG
Found at i:15707133 original size:27 final size:25
Alignment explanation
Indices: 15707090--15707142 Score: 63
Period size: 27 Copynumber: 2.0 Consensus size: 25
15707080 CATGTATAAA
15707090 TTTTAGTTTTTTATTTCATTTATATTT
1 TTTTAGTTTTTTATTTC--TTATATTT
*
15707117 TTTTA-TTTTATTTTTTCTTATATTT
1 TTTTAGTTTT-TTATTTCTTATATTT
15707142 T
1 T
15707143 GGTCCTATCC
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
25 9 0.38
26 4 0.17
27 11 0.46
ACGTcount: A:0.17, C:0.04, G:0.02, T:0.77
Consensus pattern (25 bp):
TTTTAGTTTTTTATTTCTTATATTT
Found at i:15707512 original size:7 final size:7
Alignment explanation
Indices: 15707500--15707538 Score: 51
Period size: 7 Copynumber: 5.4 Consensus size: 7
15707490 CTAATTGTTG
15707500 AAACCCT
1 AAACCCT
*
15707507 AAACCCC
1 AAACCCT
15707514 AAATCCCT
1 AAA-CCCT
*
15707522 AACCCCT
1 AAACCCT
15707529 AAACCCT
1 AAACCCT
15707536 AAA
1 AAA
15707539 TCCCCATAAC
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
7 22 0.81
8 5 0.19
ACGTcount: A:0.44, C:0.44, G:0.00, T:0.13
Consensus pattern (7 bp):
AAACCCT
Found at i:15707531 original size:22 final size:24
Alignment explanation
Indices: 15707503--15707555 Score: 83
Period size: 22 Copynumber: 2.3 Consensus size: 24
15707493 ATTGTTGAAA
15707503 CCCTAAACCCCAAAT-CCC-TAAC
1 CCCTAAACCCCAAATCCCCATAAC
*
15707525 CCCTAAACCCTAAATCCCCATAAC
1 CCCTAAACCCCAAATCCCCATAAC
15707549 CCCTAAA
1 CCCTAAA
15707556 GCATAACACT
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
22 14 0.50
23 3 0.11
24 11 0.39
ACGTcount: A:0.38, C:0.47, G:0.00, T:0.15
Consensus pattern (24 bp):
CCCTAAACCCCAAATCCCCATAAC
Found at i:15707962 original size:73 final size:73
Alignment explanation
Indices: 15707831--15708444 Score: 817
Period size: 73 Copynumber: 8.4 Consensus size: 73
15707821 CTAAGCATTA
* *
15707831 GCGGCGCTTTCTTAAAAACGTCGCTAAATCCCCGAAAGCTCAGAAAACGGCGTCGTTGGGCTTAG
1 GCGGCGCTTTCTCAAAAACGCCGCTAAATCCCCGAAAGCTCAGAAAACGGCGTCGTTGGGCTTAG
*
15707896 TTTTTTTT
66 GTTTTTTT
* * * *
15707904 ACGGCGCTTTCTTAAAAACGCCGCTAAATCCCTGAAAGCTCAGAAAATGGCG-CGGTTGGGCTTA
1 GCGGCGCTTTCTCAAAAACGCCGCTAAATCCCCGAAAGCTCAGAAAACGGCGTC-GTTGGGCTTA
*
15707968 GTTTTTTTT
65 GGTTTTTTT
* * * * *
15707977 GCGGCGCTTTCCCAAAAACGCCGCTAAATCCCCGATAGCTTAGAAAACGACGCCGTTGGGCTTAG
1 GCGGCGCTTTCTCAAAAACGCCGCTAAATCCCCGAAAGCTCAGAAAACGGCGTCGTTGGGCTTAG
*
15708042 TTTTTTTTTTT
66 ---GTTTTTTT
* * * * *
15708053 GCAGCGCTTCCCCAAAAATGCCGCTAAATCCCCGAAAGCTCAGAAAACGGCATCGTTGGGCTTAG
1 GCGGCGCTTTCTCAAAAACGCCGCTAAATCCCCGAAAGCTCAGAAAACGGCGTCGTTGGGCTTAG
15708118 G--TTTTT
66 GTTTTTTT
* * * *
15708124 -CGGCGCTTTCTCAAAAACGCCTCTAAA-CCCCGAAAGCTCAAAAAACGGTGTCGTTTGGCTTAG
1 GCGGCGCTTTCTCAAAAACGCCGCTAAATCCCCGAAAGCTCAGAAAACGGCGTCGTTGGGCTTAG
15708187 GTTTTTTT
66 GTTTTTTT
* * * *
15708195 GCGGCGCTTTCTAAAAAACGCCGCCAAATCCCCAAAAGCTCAGAAAACGGCGTCGTTTGGCTTAG
1 GCGGCGCTTTCTCAAAAACGCCGCTAAATCCCCGAAAGCTCAGAAAACGGCGTCGTTGGGCTTAG
15708260 GTTTTTTT
66 GTTTTTTT
* * *
15708268 GCGGTGCTTTCTCAAAAACGCCGCTAAATCCCCGAAAGCTCAAAAAACGGCGTCGTTTGGCTTAG
1 GCGGCGCTTTCTCAAAAACGCCGCTAAATCCCCGAAAGCTCAGAAAACGGCGTCGTTGGGCTTAG
15708333 GTTTTTTT
66 GTTTTTTT
* * * *
15708341 GCGGCGCTTTATCAAAAACGCCGCTAAATCCCCAAAAGCTCA-AAAAAGGCGTCGTTTGGCTTAG
1 GCGGCGCTTTCTCAAAAACGCCGCTAAATCCCCGAAAGCTCAGAAAACGGCGTCGTTGGGCTTAG
*
15708405 ATTTTTTT
66 GTTTTTTT
* *
15708413 GCGGCGCTTTATCAAAAACGTCGCTAAATCCC
1 GCGGCGCTTTCTCAAAAACGCCGCTAAATCCC
15708445 TGAGCATTAG
Statistics
Matches: 485, Mismatches: 47, Indels: 19
0.88 0.09 0.03
Matches are distributed among these distances:
69 33 0.07
70 22 0.05
71 10 0.02
72 84 0.17
73 270 0.56
74 1 0.00
76 65 0.13
ACGTcount: A:0.25, C:0.25, G:0.21, T:0.28
Consensus pattern (73 bp):
GCGGCGCTTTCTCAAAAACGCCGCTAAATCCCCGAAAGCTCAGAAAACGGCGTCGTTGGGCTTAG
GTTTTTTT
Found at i:15708242 original size:218 final size:216
Alignment explanation
Indices: 15707844--15708444 Score: 794
Period size: 218 Copynumber: 2.8 Consensus size: 216
15707834 GCGCTTTCTT
* *
15707844 AAAAACGTCGCTAAATCCCCGAAAGCTCAGAAAACGGCGTCGTTGGGCTTAGTTTTTTTTACGGC
1 AAAAACGCCGCTAAATCCCCGAAAGCTCAGAAAACGGCGTCGTTGGGCTTAG--GTTTTTACGGC
* * * * *
15707909 GCTTTCTTAAAAACGCCGCTAAATCCCTGAAAGCTCAGAAAATGGCG-CGGTTGGGCTTAGTTTT
64 GCTTTCTCAAAAACGCCGCTAAATCCCCGAAAGCTCA-AAAAAGGCGTC-GTTTGGCTTAGATTT
* * * *
15707973 TTTTGCGGCGCTTTCCCAAAAACGCCGCTAAATCCCCGATAGCTTAGAAAACGACGCCGTTGGGC
127 TTTTGCGGCGCTTTCTCAAAAACGCCGCTAAATCCCCAAAAGCTCAGAAAACGACGCCGTTGGGC
*
15708038 TTAGTTTTTTTTTTTGCAGCGCTTCCCC
192 TTAG---GTTTTTTTGCAGCGCTTCCCC
* *
15708066 AAAAATGCCGCTAAATCCCCGAAAGCTCAGAAAACGGCATCGTTGGGCTTAGGTTTTT-CGGCGC
1 AAAAACGCCGCTAAATCCCCGAAAGCTCAGAAAACGGCGTCGTTGGGCTTAGGTTTTTACGGCGC
* * *
15708130 TTTCTCAAAAACGCCTCTAAA-CCCCGAAAGCTCAAAAAACGGTGTCGTTTGGCTTAGGTTTTTT
66 TTTCTCAAAAACGCCGCTAAATCCCCGAAAGCTCAAAAAA-GGCGTCGTTTGGCTTAGATTTTTT
* * * * *
15708194 TGCGGCGCTTTCTAAAAAACGCCGCCAAATCCCCAAAAGCTCAGAAAACGGCGTCGTTTGGCTTA
130 TGCGGCGCTTTCTCAAAAACGCCGCTAAATCCCCAAAAGCTCAGAAAACGACGCCGTTGGGCTTA
* * * *
15708259 GGTTTTTTTGCGGTGCTTTCTC
195 GGTTTTTTTGCAGCGCTTCCCC
* * *
15708281 AAAAACGCCGCTAAATCCCCGAAAGCTCAAAAAACGGCGTCGTTTGGCTTAGGTTTTTTTGCGGC
1 AAAAACGCCGCTAAATCCCCGAAAGCTCAGAAAACGGCGTCGTTGGGCTTAGG--TTTTTACGGC
* *
15708346 GCTTTATCAAAAACGCCGCTAAATCCCCAAAAGCTCAAAAAAGGCGTCGTTTGGCTTAGATTTTT
64 GCTTTCTCAAAAACGCCGCTAAATCCCCGAAAGCTCAAAAAAGGCGTCGTTTGGCTTAGATTTTT
* *
15708411 TTGCGGCGCTTTATCAAAAACGTCGCTAAATCCC
129 TTGCGGCGCTTTCTCAAAAACGCCGCTAAATCCC
15708445 TGAGCATTAG
Statistics
Matches: 335, Mismatches: 38, Indels: 16
0.86 0.10 0.04
Matches are distributed among these distances:
215 65 0.19
217 9 0.03
218 164 0.49
219 43 0.13
220 5 0.01
222 49 0.15
ACGTcount: A:0.26, C:0.25, G:0.21, T:0.28
Consensus pattern (216 bp):
AAAAACGCCGCTAAATCCCCGAAAGCTCAGAAAACGGCGTCGTTGGGCTTAGGTTTTTACGGCGC
TTTCTCAAAAACGCCGCTAAATCCCCGAAAGCTCAAAAAAGGCGTCGTTTGGCTTAGATTTTTTT
GCGGCGCTTTCTCAAAAACGCCGCTAAATCCCCAAAAGCTCAGAAAACGACGCCGTTGGGCTTAG
GTTTTTTTGCAGCGCTTCCCC
Found at i:15708544 original size:113 final size:113
Alignment explanation
Indices: 15708341--15708550 Score: 269
Period size: 113 Copynumber: 1.9 Consensus size: 113
15708331 AGGTTTTTTT
*
15708341 GCGGCGCTTTATCAAAAACGCCGCTAAATCCCCAAAAGCTCAAAAAAGGCGTCGTTTGGCTTAGA
1 GCGGCGCTTTATCAAAAACGCCGCTAAATCCCCAAAAGCTCAAAAAAGGCGTCGTTGGGCTTAGA
* *
15708406 TTTTTTTGCGGCGCTTTATCAAAAACGTCGCTAAATCCCTGAGCATTA
66 GTTTTTTGCGGCGCTTTATCAAAAACGCCGCTAAATCCCTGAGCATTA
* * * * * ** * *
15708454 GCGGCGCTTTCTTAAAAACGCCGCTAACTCTCCGAAAGCTCGGTAAACGGTGTCGTTGGGCTTAG
1 GCGGCGCTTTATCAAAAACGCCGCTAAATCCCCAAAAGCTC-AAAAAAGGCGTCGTTGGGCTTAG
* **
15708519 -GTTTTTTGCGGCGCTTTCTGGAAAACGCCGCT
65 AGTTTTTTGCGGCGCTTTATCAAAAACGCCGCT
15708551 GAAAGCCTGT
Statistics
Matches: 81, Mismatches: 15, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
113 63 0.78
114 18 0.22
ACGTcount: A:0.24, C:0.25, G:0.23, T:0.27
Consensus pattern (113 bp):
GCGGCGCTTTATCAAAAACGCCGCTAAATCCCCAAAAGCTCAAAAAAGGCGTCGTTGGGCTTAGA
GTTTTTTGCGGCGCTTTATCAAAAACGCCGCTAAATCCCTGAGCATTA
Found at i:15720483 original size:24 final size:24
Alignment explanation
Indices: 15720440--15720544 Score: 151
Period size: 24 Copynumber: 4.5 Consensus size: 24
15720430 ATTGGGAAAT
15720440 GATGAATTGAC-GAAAATGTAAAG
1 GATGAATTGACGGAAAATGTAAAG
15720463 GATGAATTGACGGAAAATGTAAAG
1 GATGAATTGACGGAAAATGTAAAG
*
15720487 GATGAACTGACGGAAAATGTAAAG
1 GATGAATTGACGGAAAATGTAAAG
* * * *
15720511 GATGAATTGGCAG-TAATGTAAAA
1 GATGAATTGACGGAAAATGTAAAG
15720534 GATGAATTGAC
1 GATGAATTGAC
15720545 AGCAAATTAT
Statistics
Matches: 74, Mismatches: 7, Indels: 2
0.89 0.08 0.02
Matches are distributed among these distances:
23 29 0.39
24 45 0.61
ACGTcount: A:0.45, C:0.06, G:0.28, T:0.22
Consensus pattern (24 bp):
GATGAATTGACGGAAAATGTAAAG
Found at i:15735731 original size:68 final size:68
Alignment explanation
Indices: 15735622--15735757 Score: 263
Period size: 68 Copynumber: 2.0 Consensus size: 68
15735612 CAGATATCGT
15735622 CACTTGAGGTTATGTTGAGCTTAGCTGGGCAGCCAAGCGACTGATTGCACCACAGTAGTACATTC
1 CACTTGAGGTTATGTTGAGCTTAGCTGGGCAGCCAAGCGACTGATTGCACCACAGTAGTACATTC
15735687 CAC
66 CAC
*
15735690 CACTTGAGGTTATGTTGAGCTTAGCTGGGCAGCCAAGCGACTGATTGCACCACGGTAGTACATTC
1 CACTTGAGGTTATGTTGAGCTTAGCTGGGCAGCCAAGCGACTGATTGCACCACAGTAGTACATTC
15735755 CAC
66 CAC
15735758 TGGCAGCTTT
Statistics
Matches: 67, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
68 67 1.00
ACGTcount: A:0.24, C:0.25, G:0.26, T:0.25
Consensus pattern (68 bp):
CACTTGAGGTTATGTTGAGCTTAGCTGGGCAGCCAAGCGACTGATTGCACCACAGTAGTACATTC
CAC
Found at i:15735880 original size:74 final size:74
Alignment explanation
Indices: 15735759--15735908 Score: 282
Period size: 74 Copynumber: 2.0 Consensus size: 74
15735749 ACATTCCACT
* *
15735759 GGCAGCTTTGTTGCGAAGAGCTGATGGTACATTTGGTTCCTAAATGGAATTATTTGGCGAAAATG
1 GGCAGCTTTGTTGCAAAGAGCTGATGGTACATTTGGTTCCTAAATGGAATTATTTGACGAAAATG
15735824 GAATAGAGG
66 GAATAGAGG
15735833 GGCAGCTTTGTTGCAAAGAGCTGATGGTACATTTGGTTCCTAAATGGAATTATTTGACGAAAATG
1 GGCAGCTTTGTTGCAAAGAGCTGATGGTACATTTGGTTCCTAAATGGAATTATTTGACGAAAATG
15735898 GAATAGAGG
66 GAATAGAGG
15735907 GG
1 GG
15735909 TAATAATATT
Statistics
Matches: 74, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
74 74 1.00
ACGTcount: A:0.29, C:0.11, G:0.31, T:0.29
Consensus pattern (74 bp):
GGCAGCTTTGTTGCAAAGAGCTGATGGTACATTTGGTTCCTAAATGGAATTATTTGACGAAAATG
GAATAGAGG
Found at i:15747697 original size:47 final size:47
Alignment explanation
Indices: 15747645--15748158 Score: 529
Period size: 47 Copynumber: 10.6 Consensus size: 47
15747635 GATAATTGTG
* * *
15747645 ATGTGAATGTATATATATGTGATAAGGCCTAATGGCCGATATGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
* *
15747692 ATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
15747739 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
* * **
15747786 ATGTGAAAGTGTATATATGTGATAAGGCATATGTGATAAGGCCTAATG-GCCG-
1 ATGTGAAAGTGTATATATGTGATAAGGCCTA----AT--GGCC-GATGTGATGA
* *
15747838 ATGTGATGAA-TGTGA-A-A-GTGTATATATGTG-ATAAGGCCGAATGGCCAATGTGATGA
1 ATGTGA--AAGTGT-ATATATGTG-ATA-A-G-GCCT-A------ATGGCCGATGTGATGA
*
15747894 ATGTGAAAGTGTATATATATGTGATAAAGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGA
15747943 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGA
* *
15747992 ATGTGAAAGTGTATAAATGTGATAAGGCCTAATAGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
15748039 ATGTGAAAGTGTATATATGTGATGAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
* * * * * * * * *
15748086 ATGTGAAAGTGTATATATATGACAGGGCCGAGTAGCCAACGTGATGG
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
15748133 ATGTGAAAGTGTATAAATGTGATAAG
1 ATGTGAAAGTGTATATATGTGATAAG
15748159 TCCCGAAGGG
Statistics
Matches: 401, Mismatches: 40, Indels: 52
0.81 0.08 0.11
Matches are distributed among these distances:
47 254 0.63
49 74 0.18
51 5 0.01
52 10 0.02
53 11 0.03
54 15 0.04
55 12 0.03
56 8 0.02
57 5 0.01
58 4 0.01
59 3 0.01
ACGTcount: A:0.34, C:0.08, G:0.29, T:0.29
Consensus pattern (47 bp):
ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
Found at i:15747769 original size:94 final size:94
Alignment explanation
Indices: 15747645--15748158 Score: 677
Period size: 94 Copynumber: 5.3 Consensus size: 94
15747635 GATAATTGTG
* * *
15747645 ATGTGAATGTATATATATGTGATAAGGCCTAATGGCCGATATGATGAATGTGAAAGTGTATATAT
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
* *
15747710 GTGATAAGGCCGAATGGCCAATGTGATGA
66 GTGATAAGGCCTAATGGCCGATGTGATGA
15747739 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAA--G------T
15747804 GTGATAAGGCATATGTGATAAGGCCTAATGGCCGATGTGATGA
58 GT-AT-----ATATGTGATAAGGCCTAATGGCCGATGTGATGA
* *
15747847 ATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATAT
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATAT
*
15747912 ATGTGATAAAGCCTAATGGCCGATGTGATGA
64 ATGTGATAAGGCCTAATGGCCGATGTGATGA
*
15747943 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAA
1 ATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
*
15748008 ATGTGATAAGGCCTAATAGCCGATGTGATGA
64 ATGTGATAAGGCCTAATGGCCGATGTGATGA
*
15748039 ATGTGAAAGTGTATATATGTGATGAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
* * * * * * * * *
15748104 ATGACAGGGCCGAGTAGCCAACGTGATGG
66 GTGATAAGGCCTAATGGCCGATGTGATGA
*
15748133 ATGTGAAAGTGTATAAATGTGATAAG
1 ATGTGAAAGTGTATATATGTGATAAG
15748159 TCCCGAAGGG
Statistics
Matches: 377, Mismatches: 25, Indels: 36
0.86 0.06 0.08
Matches are distributed among these distances:
94 149 0.40
96 88 0.23
98 45 0.12
100 2 0.01
101 2 0.01
102 4 0.01
103 2 0.01
106 1 0.00
108 84 0.22
ACGTcount: A:0.34, C:0.08, G:0.29, T:0.29
Consensus pattern (94 bp):
ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
GTGATAAGGCCTAATGGCCGATGTGATGA
Found at i:15747819 original size:14 final size:14
Alignment explanation
Indices: 15747800--15747827 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
15747790 GAAAGTGTAT
15747800 ATATGTGATAAGGC
1 ATATGTGATAAGGC
15747814 ATATGTGATAAGGC
1 ATATGTGATAAGGC
15747828 CTAATGGCCG
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:0.36, C:0.07, G:0.29, T:0.29
Consensus pattern (14 bp):
ATATGTGATAAGGC
Found at i:15747824 original size:61 final size:61
Alignment explanation
Indices: 15747753--15747874 Score: 244
Period size: 61 Copynumber: 2.0 Consensus size: 61
15747743 GAAAGTGTAT
15747753 ATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGC
1 ATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGC
15747814 ATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGC
1 ATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGC
15747875 CGAATGGCCA
Statistics
Matches: 61, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
61 61 1.00
ACGTcount: A:0.33, C:0.08, G:0.30, T:0.30
Consensus pattern (61 bp):
ATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGC
Found at i:15763967 original size:14 final size:14
Alignment explanation
Indices: 15763948--15763981 Score: 68
Period size: 14 Copynumber: 2.4 Consensus size: 14
15763938 AAAAATAGAT
15763948 TTAGGTGAAAAAAA
1 TTAGGTGAAAAAAA
15763962 TTAGGTGAAAAAAA
1 TTAGGTGAAAAAAA
15763976 TTAGGT
1 TTAGGT
15763982 CCGATTAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.50, C:0.00, G:0.24, T:0.26
Consensus pattern (14 bp):
TTAGGTGAAAAAAA
Found at i:15773554 original size:19 final size:20
Alignment explanation
Indices: 15773530--15773570 Score: 66
Period size: 19 Copynumber: 2.1 Consensus size: 20
15773520 TAATTTAGGC
*
15773530 AAATATTGAATA-AAAATTG
1 AAATATTCAATATAAAATTG
15773549 AAATATTCAATATAAAATTG
1 AAATATTCAATATAAAATTG
15773569 AA
1 AA
15773571 TTGTGTTGTA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
19 11 0.55
20 9 0.45
ACGTcount: A:0.59, C:0.02, G:0.07, T:0.32
Consensus pattern (20 bp):
AAATATTCAATATAAAATTG
Found at i:15794816 original size:11 final size:11
Alignment explanation
Indices: 15794800--15794824 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
15794790 AACTAAATAG
15794800 ATTGCATCTGA
1 ATTGCATCTGA
15794811 ATTGCATCTGA
1 ATTGCATCTGA
15794822 ATT
1 ATT
15794825 ATGCTTTCGC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.28, C:0.16, G:0.16, T:0.40
Consensus pattern (11 bp):
ATTGCATCTGA
Found at i:15796562 original size:23 final size:23
Alignment explanation
Indices: 15796518--15796562 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
15796508 TAACTATCAT
* *
15796518 TAAAATAATAAAGTAAATAAATA
1 TAAAAGAATAAAGTAAAGAAATA
15796541 TAAAAGAATAAAAG-AAAGAAAT
1 TAAAAGAAT-AAAGTAAAGAAAT
15796563 GAAGGAGAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 15 0.79
24 4 0.21
ACGTcount: A:0.71, C:0.00, G:0.09, T:0.20
Consensus pattern (23 bp):
TAAAAGAATAAAGTAAAGAAATA
Found at i:15797506 original size:21 final size:22
Alignment explanation
Indices: 15797482--15797541 Score: 70
Period size: 21 Copynumber: 2.8 Consensus size: 22
15797472 TGTCGATCAT
15797482 GCACTATATGTGTTGTATT-AG
1 GCACTATATGTGTTGTATTCAG
* **
15797503 GCACCACGTGTGTTGT-TTCAG
1 GCACTATATGTGTTGTATTCAG
*
15797524 GCACTTTATGTGTTGTAT
1 GCACTATATGTGTTGTAT
15797542 ACTGCTTTTG
Statistics
Matches: 30, Mismatches: 7, Indels: 3
0.75 0.17 0.08
Matches are distributed among these distances:
20 2 0.07
21 27 0.90
22 1 0.03
ACGTcount: A:0.18, C:0.15, G:0.25, T:0.42
Consensus pattern (22 bp):
GCACTATATGTGTTGTATTCAG
Found at i:15813699 original size:23 final size:23
Alignment explanation
Indices: 15813673--15813719 Score: 76
Period size: 23 Copynumber: 2.0 Consensus size: 23
15813663 TCACCTTTGG
15813673 ATTATGATCCAAGAAACATAATA
1 ATTATGATCCAAGAAACATAATA
* *
15813696 ATTATGATCTAAGCAACATAATA
1 ATTATGATCCAAGAAACATAATA
15813719 A
1 A
15813720 GCATTAATCG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.51, C:0.13, G:0.09, T:0.28
Consensus pattern (23 bp):
ATTATGATCCAAGAAACATAATA
Found at i:15814883 original size:3 final size:3
Alignment explanation
Indices: 15814875--15814904 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
15814865 CCAAATAGCC
15814875 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
15814905 GTGGAATTAG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:15820141 original size:14 final size:15
Alignment explanation
Indices: 15820100--15820141 Score: 52
Period size: 14 Copynumber: 2.8 Consensus size: 15
15820090 GATAATTAAT
15820100 TTTTAT-TTATTCTA
1 TTTTATATTATTCTA
15820114 TTTTGATAATTATT-TA
1 TTTT-AT-ATTATTCTA
15820130 TTTTATATTATT
1 TTTTATATTATT
15820142 AGGGTAAAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
14 10 0.40
15 4 0.16
16 6 0.24
17 5 0.20
ACGTcount: A:0.26, C:0.02, G:0.02, T:0.69
Consensus pattern (15 bp):
TTTTATATTATTCTA
Found at i:15823835 original size:32 final size:32
Alignment explanation
Indices: 15823799--15824033 Score: 226
Period size: 32 Copynumber: 7.3 Consensus size: 32
15823789 AATCAAATCA
* *
15823799 GCAATATATAAATACATATACAAATCAATTTG
1 GCAATATATATATACATATACAATTCAATTTG
** * *
15823831 GCAATAGGTGTATACCTATACAATTCAATTTG
1 GCAATATATATATACATATACAATTCAATTTG
*
15823863 GCAATATA-AGTATATATATACAATTCAATTTG
1 GCAATATATA-TATACATATACAATTCAATTTG
* * * *
15823895 GTAATAGATGTATACCTATACAATTCAATTTG
1 GCAATATATATATACATATACAATTCAATTTG
* *
15823927 GCAATATA-AGTATATATATACAATTCAATTCG
1 GCAATATATA-TATACATATACAATTCAATTTG
** *
15823959 ATAATATA-AGTATATATATACAATTCAATTTG
1 GCAATATATA-TATACATATACAATTCAATTTG
* * *
15823991 GCAAT-TATAAGAATATATATACAATTCAATTCG
1 GCAATATAT-A-TATACATATACAATTCAATTTG
15824024 GCAATATATA
1 GCAATATATA
15824034 ACCATATATG
Statistics
Matches: 168, Mismatches: 29, Indels: 11
0.81 0.14 0.05
Matches are distributed among these distances:
31 2 0.01
32 135 0.80
33 28 0.17
34 3 0.02
ACGTcount: A:0.43, C:0.11, G:0.10, T:0.35
Consensus pattern (32 bp):
GCAATATATATATACATATACAATTCAATTTG
Found at i:15823882 original size:64 final size:64
Alignment explanation
Indices: 15823814--15824029 Score: 315
Period size: 64 Copynumber: 3.4 Consensus size: 64
15823804 ATATAAATAC
* * *
15823814 ATATACAAATCAATTTGGCAATAGGTGTATACCTATACAATTCAATTTGGCAATATAAGTATAT
1 ATATACAATTCAATTCGGCAATAGATGTATACCTATACAATTCAATTTGGCAATATAAGTATAT
* *
15823878 ATATACAATTCAATTTGGTAATAGATGTATACCTATACAATTCAATTTGGCAATATAAGTATAT
1 ATATACAATTCAATTCGGCAATAGATGTATACCTATACAATTCAATTTGGCAATATAAGTATAT
** * * ** *
15823942 ATATACAATTCAATTCGATAATATAAGTATATATATACAATTCAATTTGGCAATTATAAGAATAT
1 ATATACAATTCAATTCGGCAATAGATGTATACCTATACAATTCAATTTGGCAA-TATAAGTATAT
15824007 ATATACAATTCAATTCGGCAATA
1 ATATACAATTCAATTCGGCAATA
15824030 TATAACCATA
Statistics
Matches: 139, Mismatches: 12, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
64 108 0.78
65 31 0.22
ACGTcount: A:0.43, C:0.12, G:0.10, T:0.36
Consensus pattern (64 bp):
ATATACAATTCAATTCGGCAATAGATGTATACCTATACAATTCAATTTGGCAATATAAGTATAT
Found at i:15823930 original size:96 final size:97
Alignment explanation
Indices: 15823809--15824029 Score: 291
Period size: 96 Copynumber: 2.3 Consensus size: 97
15823799 GCAATATATA
* ** * * *
15823809 AATACATATACAAATCAATTTGGCAATAGGTGTATACCTATACAATTCAATTTGGCAATATAAGT
1 AATACATATACAATTCAATTTGGCAATAGAAGTATACATATACAATTCAATTCGACAATATAAGT
* *
15823874 ATATATATACAATTCAATTTGGTAA-TAGATG
66 ATATATATACAATTCAATTTGGCAATTAGAAG
* * * * *
15823905 TATACCTATACAATTCAATTTGGCAATATAAGTATATATATACAATTCAATTCGATAATATAAGT
1 AATACATATACAATTCAATTTGGCAATAGAAGTATACATATACAATTCAATTCGACAATATAAGT
*
15823970 ATATATATACAATTCAATTTGGCAATTATAAG
66 ATATATATACAATTCAATTTGGCAATTAGAAG
* *
15824002 AATATATATACAATTCAATTCGGCAATA
1 AATACATATACAATTCAATTTGGCAATA
15824030 TATAACCATA
Statistics
Matches: 106, Mismatches: 18, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
96 78 0.74
97 28 0.26
ACGTcount: A:0.43, C:0.12, G:0.10, T:0.35
Consensus pattern (97 bp):
AATACATATACAATTCAATTTGGCAATAGAAGTATACATATACAATTCAATTCGACAATATAAGT
ATATATATACAATTCAATTTGGCAATTAGAAG
Found at i:15824065 original size:65 final size:65
Alignment explanation
Indices: 15823847--15824073 Score: 159
Period size: 64 Copynumber: 3.6 Consensus size: 65
15823837 GGTGTATACC
** * * ** * * *
15823847 TATACAATTCAATTTGGC-A-ATATAAGTATATATATACAATTCAATTTGGTAATAGATG-TATA
1 TATACAATTCAATTCAGCAATATATAAGAATATATATACAATTCAATTCGACAATATAAGACATA
** * * *
15823909 CCTATACAATTCAATTTGGC-A-ATATAAGTATATATATACAATTCAATTCGATAATATAAGTAT
1 --TATACAATTCAATTCAGCAATATATAAGAATATATATACAATTCAATTCGACAATATAAG-AC
15823972 ATA
63 ATA
** *
15823975 TATACAATTCAATTTGGCAAT-TATAAGAATATATATACAATTCAATTCGGCAATATATA-ACCA
1 TATACAATTCAATTCAGCAATATATAAGAATATATATACAATTCAATTCGACAATATA-AGA-CA
15824038 TA
64 TA
* *
15824040 TAT-GAA-TCAAATTCAGCAATATATAA-AACATATA
1 TATACAATTC-AATTCAGCAATATATAAGAATATATA
15824074 CATTTAAATT
Statistics
Matches: 143, Mismatches: 12, Indels: 16
0.84 0.07 0.09
Matches are distributed among these distances:
63 2 0.01
64 91 0.64
65 45 0.31
66 5 0.03
ACGTcount: A:0.45, C:0.11, G:0.08, T:0.35
Consensus pattern (65 bp):
TATACAATTCAATTCAGCAATATATAAGAATATATATACAATTCAATTCGACAATATAAGACATA
Found at i:15824083 original size:31 final size:30
Alignment explanation
Indices: 15824007--15824083 Score: 82
Period size: 31 Copynumber: 2.5 Consensus size: 30
15823997 ATAAGAATAT
* * *
15824007 ATATACAATTCAATTCGGCAATATATAACC
1 ATATACAATTAAATTCAGCAATATATAAAC
* *
15824037 ATATATGAATCAAATTCAGCAATATATAAAAC
1 ATATA-CAATTAAATTCAGCAATATAT-AAAC
*
15824069 ATATACATTTAAATT
1 ATATACAATTAAATT
15824084 TAAAAACATC
Statistics
Matches: 37, Mismatches: 8, Indels: 3
0.77 0.17 0.06
Matches are distributed among these distances:
30 5 0.14
31 24 0.65
32 8 0.22
ACGTcount: A:0.48, C:0.14, G:0.05, T:0.32
Consensus pattern (30 bp):
ATATACAATTAAATTCAGCAATATATAAAC
Found at i:15827237 original size:27 final size:25
Alignment explanation
Indices: 15827184--15827248 Score: 64
Period size: 25 Copynumber: 2.6 Consensus size: 25
15827174 TCAATCCATA
*
15827184 ATATT-TTTTTTTAAATTTTAAAAT
1 ATATTATTTTTTTAAATTTCAAAAT
15827208 ATATTATTTTTTT-AATATTCAATAAT
1 ATATTATTTTTTTAAAT-TTCAA-AAT
15827234 -TATATATTTCTTTTA
1 ATAT-TATTT-TTTTA
15827249 CTACAATCAT
Statistics
Matches: 34, Mismatches: 1, Indels: 8
0.79 0.02 0.19
Matches are distributed among these distances:
24 8 0.24
25 14 0.41
26 8 0.24
27 4 0.12
ACGTcount: A:0.35, C:0.03, G:0.00, T:0.62
Consensus pattern (25 bp):
ATATTATTTTTTTAAATTTCAAAAT
Found at i:15832703 original size:33 final size:33
Alignment explanation
Indices: 15832663--15832731 Score: 113
Period size: 33 Copynumber: 2.1 Consensus size: 33
15832653 GAAACACCAT
15832663 CACCACCCACAAATACTGAACCACAT-ATTGAAC
1 CACCACCCACAAATACTGAACCACATGA-TGAAC
*
15832696 CACCACCCACAAATATTGAACCACATGATGAAC
1 CACCACCCACAAATACTGAACCACATGATGAAC
15832729 CAC
1 CAC
15832732 ATATTGAACC
Statistics
Matches: 34, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
33 33 0.97
34 1 0.03
ACGTcount: A:0.42, C:0.36, G:0.07, T:0.14
Consensus pattern (33 bp):
CACCACCCACAAATACTGAACCACATGATGAAC
Found at i:15832729 original size:12 final size:12
Alignment explanation
Indices: 15832708--15832743 Score: 56
Period size: 12 Copynumber: 3.0 Consensus size: 12
15832698 CCACCCACAA
15832708 ATATTGAACCAC
1 ATATTGAACCAC
15832720 ATGA-TGAACCAC
1 AT-ATTGAACCAC
15832732 ATATTGAACCAC
1 ATATTGAACCAC
15832744 CAACTCCAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
11 1 0.05
12 20 0.91
13 1 0.05
ACGTcount: A:0.42, C:0.25, G:0.11, T:0.22
Consensus pattern (12 bp):
ATATTGAACCAC
Found at i:15836073 original size:4 final size:4
Alignment explanation
Indices: 15836064--15836089 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
15836054 GAGATGGGGC
15836064 AAGA AAGA AAGA AAGA AAGA AAGA AA
1 AAGA AAGA AAGA AAGA AAGA AAGA AA
15836090 TGAGGAGGGT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.77, C:0.00, G:0.23, T:0.00
Consensus pattern (4 bp):
AAGA
Found at i:15849036 original size:52 final size:48
Alignment explanation
Indices: 15849017--15849219 Score: 265
Period size: 46 Copynumber: 4.3 Consensus size: 48
15849007 TGACAAGTGG
* *
15849017 AAAGTGATAAGTAATAGCTTCGGCTATACTTATCTGATCAAGTGAC--
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAA
15849063 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTGA
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGAC-A---A
* *
15849115 AAAGTGATAAGTGATAGCTTCGGCTATACTTATCTGATCAAGAGAC--
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAA
** *
15849161 AAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGAGAC--
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAA
15849207 AAAGTGATAAGTG
1 AAAGTGATAAGTG
15849220 GCTACACTTA
Statistics
Matches: 144, Mismatches: 7, Indels: 12
0.88 0.04 0.07
Matches are distributed among these distances:
46 100 0.69
52 44 0.31
ACGTcount: A:0.36, C:0.14, G:0.22, T:0.28
Consensus pattern (48 bp):
AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAA
Found at i:15849071 original size:98 final size:98
Alignment explanation
Indices: 15848951--15849219 Score: 457
Period size: 98 Copynumber: 2.7 Consensus size: 98
15848941 TTTGAGTACT
*
15848951 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
1 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
*
15849016 GAAAGTGATAAGTAATAGCTTCGGCTATACTTA
66 AAAAGTGATAAGTAATAGCTTCGGCTATACTTA
**
15849049 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTG
1 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
*
15849114 AAAAGTGATAAGTGATAGCTTCGGCTATACTTA
66 AAAAGTGATAAGTAATAGCTTCGGCTATACTTA
* *
15849147 TCTGATCAAGAGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGAGACAAAGT
1 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGTGAC-AAGT
*
15849212 GATAAGTG
65 GAAAAGTG
15849220 GCTACACTTA
Statistics
Matches: 160, Mismatches: 10, Indels: 1
0.94 0.06 0.01
Matches are distributed among these distances:
98 149 0.93
99 11 0.07
ACGTcount: A:0.35, C:0.14, G:0.22, T:0.28
Consensus pattern (98 bp):
TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
AAAAGTGATAAGTAATAGCTTCGGCTATACTTA
Found at i:15849227 original size:37 final size:37
Alignment explanation
Indices: 15849183--15849328 Score: 242
Period size: 37 Copynumber: 4.0 Consensus size: 37
15849173 GATAGCTTTA
*
15849183 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
15849220 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
*
15849257 GCTACACTTATCTGATCAAGAAACAAAGTGATAGGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
**
15849294 GCTACACTTATCTGATC-AGGGAC-AAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
15849329 ATCATACGTA
Statistics
Matches: 104, Mismatches: 5, Indels: 2
0.94 0.05 0.02
Matches are distributed among these distances:
35 11 0.11
36 4 0.04
37 89 0.86
ACGTcount: A:0.37, C:0.16, G:0.22, T:0.25
Consensus pattern (37 bp):
GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
Found at i:15850661 original size:58 final size:59
Alignment explanation
Indices: 15850581--15850699 Score: 222
Period size: 58 Copynumber: 2.0 Consensus size: 59
15850571 CATGTGAACA
*
15850581 TGTGATTATGTGATTCCGTGTAAGACCATAGCTGGGCTATGGCATCGGTAAGTGATATG
1 TGTGATTATGTGATTCCATGTAAGACCATAGCTGGGCTATGGCATCGGTAAGTGATATG
15850640 TGTGA-TATGTGATTCCATGTAAGACCATAGCTGGGCTATGGCATCGGTAAGTGATATG
1 TGTGATTATGTGATTCCATGTAAGACCATAGCTGGGCTATGGCATCGGTAAGTGATATG
15850698 TG
1 TG
15850700 ATTTCGTGTA
Statistics
Matches: 59, Mismatches: 1, Indels: 1
0.97 0.02 0.02
Matches are distributed among these distances:
58 54 0.92
59 5 0.08
ACGTcount: A:0.24, C:0.13, G:0.30, T:0.32
Consensus pattern (59 bp):
TGTGATTATGTGATTCCATGTAAGACCATAGCTGGGCTATGGCATCGGTAAGTGATATG
Done.