Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr1
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: 96304692
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2448173 characters in sequence are not A, C, G, or T
File 48 of 313
Found at i:16012148 original size:8 final size:8
Alignment explanation
Indices: 16012137--16012165 Score: 51
Period size: 8 Copynumber: 3.8 Consensus size: 8
16012127 TTTTAAATGC
16012137 TTTTTTTA
1 TTTTTTTA
16012145 -TTTTTTA
1 TTTTTTTA
16012152 TTTTTTTA
1 TTTTTTTA
16012160 TTTTTT
1 TTTTTT
16012166 AAAATAAATA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
7 7 0.35
8 13 0.65
ACGTcount: A:0.10, C:0.00, G:0.00, T:0.90
Consensus pattern (8 bp):
TTTTTTTA
Found at i:16012157 original size:15 final size:15
Alignment explanation
Indices: 16012137--16012166 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
16012127 TTTTAAATGC
16012137 TTTTTTTATTTTTTA
1 TTTTTTTATTTTTTA
16012152 TTTTTTTATTTTTTA
1 TTTTTTTATTTTTTA
16012167 AAATAAATAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.13, C:0.00, G:0.00, T:0.87
Consensus pattern (15 bp):
TTTTTTTATTTTTTA
Found at i:16013004 original size:56 final size:56
Alignment explanation
Indices: 16012938--16013110 Score: 319
Period size: 56 Copynumber: 3.1 Consensus size: 56
16012928 GATATATTTG
* *
16012938 GATGTTTATATAAACCGCTTTTTTATTAATATTTTTATTATTTTACTTGAAGTGTT
1 GATGTTTATATAAACTGTTTTTTTATTAATATTTTTATTATTTTACTTGAAGTGTT
16012994 GATGTTTATATAAACTGTTTTTTTATTAATATTTTTATTATTTTACTTGAAGTGTT
1 GATGTTTATATAAACTGTTTTTTTATTAATATTTTTATTATTTTACTTGAAGTGTT
*
16013050 GATGTTTATATAAACTGTTTTTTTATTAATATTTTTATTATTTTACTTGAAGTGCT
1 GATGTTTATATAAACTGTTTTTTTATTAATATTTTTATTATTTTACTTGAAGTGTT
16013106 GATGT
1 GATGT
16013111 AATTTAAAAA
Statistics
Matches: 114, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
56 114 1.00
ACGTcount: A:0.27, C:0.05, G:0.12, T:0.57
Consensus pattern (56 bp):
GATGTTTATATAAACTGTTTTTTTATTAATATTTTTATTATTTTACTTGAAGTGTT
Found at i:16013142 original size:22 final size:23
Alignment explanation
Indices: 16013116--16013159 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 23
16013106 GATGTAATTT
16013116 AAAAATATTTTA-AAGTTTTAAG
1 AAAAATATTTTACAAGTTTTAAG
* *
16013138 AAAAATGTTTTACATGTTTTAA
1 AAAAATATTTTACAAGTTTTAA
16013160 ACCATTATTA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 11 0.58
23 8 0.42
ACGTcount: A:0.45, C:0.02, G:0.09, T:0.43
Consensus pattern (23 bp):
AAAAATATTTTACAAGTTTTAAG
Found at i:16016082 original size:18 final size:19
Alignment explanation
Indices: 16016059--16016106 Score: 71
Period size: 19 Copynumber: 2.5 Consensus size: 19
16016049 TCTTGTTTAG
16016059 AAATATTTTTAT-TTAAAA
1 AAATATTTTTATCTTAAAA
*
16016077 AAATATTTTTTATCTTTAAA
1 AAATA-TTTTTATCTTAAAA
16016097 AAATATTTTT
1 AAATATTTTT
16016107 GAGAAGCAAT
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
18 5 0.19
19 12 0.44
20 10 0.37
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.54
Consensus pattern (19 bp):
AAATATTTTTATCTTAAAA
Found at i:16016097 original size:20 final size:19
Alignment explanation
Indices: 16016059--16016106 Score: 71
Period size: 20 Copynumber: 2.5 Consensus size: 19
16016049 TCTTGTTTAG
16016059 AAATA-TTTTTATTTAAAA
1 AAATATTTTTTATTTAAAA
*
16016077 AAATATTTTTTATCTTTAAA
1 AAATATTTTTTAT-TTAAAA
16016097 AAATATTTTT
1 AAATATTTTT
16016107 GAGAAGCAAT
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
18 5 0.19
19 7 0.26
20 15 0.56
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.54
Consensus pattern (19 bp):
AAATATTTTTTATTTAAAA
Found at i:16020738 original size:47 final size:48
Alignment explanation
Indices: 16020617--16020741 Score: 126
Period size: 51 Copynumber: 2.5 Consensus size: 48
16020607 ATTAAATACA
*
16020617 AGATCTTGAACAAATAATATAAACAAATATTTATATTCATGTAAAAACACC
1 AGATC-TGAA-AAATAAT-TAAATAAATATTTATATTCATGTAAAAACACC
* * * * *
16020668 AGATCTAAACAAAACAAATTAAATAAATATTTATATTTAT-TTAAAACATC
1 AGATCT-GA-AAAA-TAATTAAATAAATATTTATATTCATGTAAAAACACC
*
16020718 ATATCTGAAAAATAATTAAATAAA
1 AGATCTGAAAAATAATTAAATAAA
16020742 CAAGATCTTG
Statistics
Matches: 62, Mismatches: 9, Indels: 10
0.77 0.11 0.12
Matches are distributed among these distances:
47 11 0.18
48 4 0.06
49 1 0.02
50 14 0.23
51 28 0.45
52 4 0.06
ACGTcount: A:0.54, C:0.10, G:0.04, T:0.31
Consensus pattern (48 bp):
AGATCTGAAAAATAATTAAATAAATATTTATATTCATGTAAAAACACC
Found at i:16023778 original size:43 final size:43
Alignment explanation
Indices: 16023729--16023842 Score: 174
Period size: 43 Copynumber: 2.6 Consensus size: 43
16023719 CCAGCATTTC
* *
16023729 GCCTGCTAGGCTTGAAGCCCGATATCATTTCACCGACATTATA
1 GCCTGCTAGGCTCGAAGCCCGATATCATCTCACCGACATTATA
* *
16023772 GCCTGCTAGGCTCGAAGCCCGATATTATCTCACCGGCATTATA
1 GCCTGCTAGGCTCGAAGCCCGATATCATCTCACCGACATTATA
*
16023815 GCCTGCTAGGCCCGAAGCCCGAATATCA
1 GCCTGCTAGGCTCGAAGCCCG-ATATCA
16023843 CATTTCGATA
Statistics
Matches: 64, Mismatches: 6, Indels: 1
0.90 0.08 0.01
Matches are distributed among these distances:
43 59 0.92
44 5 0.08
ACGTcount: A:0.25, C:0.31, G:0.21, T:0.24
Consensus pattern (43 bp):
GCCTGCTAGGCTCGAAGCCCGATATCATCTCACCGACATTATA
Found at i:16025733 original size:14 final size:15
Alignment explanation
Indices: 16025704--16025733 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
16025694 CAAAATTTAG
16025704 ACATGATACTTTCAC
1 ACATGATACTTTCAC
16025719 ACATGATAC-TTCAC
1 ACATGATACTTTCAC
16025733 A
1 A
16025734 TATAATAAAC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 6 0.40
15 9 0.60
ACGTcount: A:0.37, C:0.27, G:0.07, T:0.30
Consensus pattern (15 bp):
ACATGATACTTTCAC
Found at i:16036777 original size:13 final size:14
Alignment explanation
Indices: 16036759--16036792 Score: 52
Period size: 15 Copynumber: 2.4 Consensus size: 14
16036749 AGTCAATAAT
16036759 AATTTTTA-TATTG
1 AATTTTTATTATTG
16036772 AATTTTTATTTATTG
1 AATTTTTA-TTATTG
16036787 AATTTT
1 AATTTT
16036793 AATCAGTTGA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 8 0.42
15 11 0.58
ACGTcount: A:0.29, C:0.00, G:0.06, T:0.65
Consensus pattern (14 bp):
AATTTTTATTATTG
Found at i:16048216 original size:47 final size:48
Alignment explanation
Indices: 16048162--16048289 Score: 145
Period size: 46 Copynumber: 2.7 Consensus size: 48
16048152 CTATATTAAC
*** *
16048162 TAGAACACATTAAATAAACTTAAGACATATTAAATGGTTGTA-CTAAT
1 TAGAACACATTAAATAAACTTAAGACATATTAAATGACCGAATCTAAT
* *
16048209 TAGAACACATT-AATTAACTTAAGACATATT-AATTACCGAATCTAAT
1 TAGAACACATTAAATAAACTTAAGACATATTAAATGACCGAATCTAAT
* * * *
16048255 TAGAACATATTAAATAGACTCAAGGCATATTAAAT
1 TAGAACACATTAAATAAACTTAAGACATATTAAAT
16048290 ACTTAAACTA
Statistics
Matches: 67, Mismatches: 11, Indels: 5
0.81 0.13 0.06
Matches are distributed among these distances:
45 5 0.07
46 33 0.49
47 26 0.39
48 3 0.04
ACGTcount: A:0.47, C:0.12, G:0.09, T:0.31
Consensus pattern (48 bp):
TAGAACACATTAAATAAACTTAAGACATATTAAATGACCGAATCTAAT
Found at i:16050838 original size:28 final size:28
Alignment explanation
Indices: 16050750--16050839 Score: 108
Period size: 28 Copynumber: 3.2 Consensus size: 28
16050740 CTACAAAGGT
* *
16050750 TTCCTTATCCAAAGATTGCCATAATGGC
1 TTCCTTATCCAGAGATTTCCATAATGGC
* * * *
16050778 TTCATTATCCAGAGATTTCAACAAAGGC
1 TTCCTTATCCAGAGATTTCCATAATGGC
*
16050806 TTCCTTATCTAGAGATTTCCATAATGGC
1 TTCCTTATCCAGAGATTTCCATAATGGC
*
16050834 GTCCTT
1 TTCCTT
16050840 TTCATTAAGT
Statistics
Matches: 50, Mismatches: 12, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
28 50 1.00
ACGTcount: A:0.28, C:0.23, G:0.14, T:0.34
Consensus pattern (28 bp):
TTCCTTATCCAGAGATTTCCATAATGGC
Found at i:16050983 original size:28 final size:28
Alignment explanation
Indices: 16050952--16051041 Score: 76
Period size: 28 Copynumber: 3.2 Consensus size: 28
16050942 CAAAAGCTAT
*
16050952 CCTTTAATAGGTTCACCACAAAGGCTTG
1 CCTTTAATAGGTTCGCCACAAAGGCTTG
* * *
16050980 CCTTT-CTAGAGTTTTGCAACAAAGG-TTG
1 CCTTTAATAG-G-TTCGCCACAAAGGCTTG
** *
16051008 TCCTTTAGCAGGTCCGCCACAAAGGCTTG
1 -CCTTTAATAGGTTCGCCACAAAGGCTTG
16051037 CCTTT
1 CCTTT
16051042 CCAAAGTTTT
Statistics
Matches: 48, Mismatches: 9, Indels: 10
0.72 0.13 0.15
Matches are distributed among these distances:
27 3 0.06
28 24 0.50
29 19 0.40
30 2 0.04
ACGTcount: A:0.23, C:0.26, G:0.20, T:0.31
Consensus pattern (28 bp):
CCTTTAATAGGTTCGCCACAAAGGCTTG
Found at i:16051002 original size:29 final size:29
Alignment explanation
Indices: 16050967--16051061 Score: 97
Period size: 29 Copynumber: 3.3 Consensus size: 29
16050957 AATAGGTTCA
16050967 CCACAAAGGCTTGCCTTTCTAGAGTTTTG
1 CCACAAAGGCTTGCCTTTCTAGAGTTTTG
* * **
16050996 CAACAAAGG-TTGTCC-TT-TAGCAGGTCCG
1 CCACAAAGGCTTG-CCTTTCTAG-AGTTTTG
* *
16051024 CCACAAAGGCTTGCCTTTCCAAAGTTTTG
1 CCACAAAGGCTTGCCTTTCTAGAGTTTTG
16051053 CCACAAAGG
1 CCACAAAGG
16051062 ATTTTTTTCT
Statistics
Matches: 51, Mismatches: 10, Indels: 10
0.72 0.14 0.14
Matches are distributed among these distances:
27 3 0.06
28 19 0.37
29 28 0.55
30 1 0.02
ACGTcount: A:0.25, C:0.26, G:0.21, T:0.27
Consensus pattern (29 bp):
CCACAAAGGCTTGCCTTTCTAGAGTTTTG
Found at i:16051002 original size:57 final size:57
Alignment explanation
Indices: 16050874--16051061 Score: 207
Period size: 57 Copynumber: 3.3 Consensus size: 57
16050864 CTTTCCATTC
* * * * *
16050874 AGAGTCTTGCCACAAAGGC-ATCATTTAAGAGGTTCACCGCAAAGGCTTACCTTTCT
1 AGAGTTTTGCCACAAAGGCTATCCTTTAACAGGTTCACCACAAAGGCTTGCCTTTCT
* * * * *
16050930 AGATTTTTTCTACAAAAGCTATCCTTTAATAGGTTCACCACAAAGGCTTGCCTTTCT
1 AGAGTTTTGCCACAAAGGCTATCCTTTAACAGGTTCACCACAAAGGCTTGCCTTTCT
* * * * * * *
16050987 AGAGTTTTGCAACAAAGGTTGTCCTTTAGCAGGTCCGCCACAAAGGCTTGCCTTTCC
1 AGAGTTTTGCCACAAAGGCTATCCTTTAACAGGTTCACCACAAAGGCTTGCCTTTCT
*
16051044 AAAGTTTTGCCACAAAGG
1 AGAGTTTTGCCACAAAGG
16051062 ATTTTTTTCT
Statistics
Matches: 109, Mismatches: 22, Indels: 1
0.83 0.17 0.01
Matches are distributed among these distances:
56 14 0.13
57 95 0.87
ACGTcount: A:0.28, C:0.24, G:0.19, T:0.30
Consensus pattern (57 bp):
AGAGTTTTGCCACAAAGGCTATCCTTTAACAGGTTCACCACAAAGGCTTGCCTTTCT
Found at i:16061763 original size:46 final size:46
Alignment explanation
Indices: 16061711--16061804 Score: 145
Period size: 46 Copynumber: 2.0 Consensus size: 46
16061701 GTTGAATTTA
*
16061711 AAGCTTGTTAAA-TTGCTCTTAATATTTCCGGATAAGTTACTTAGTT
1 AAGCTTGTTAAATTTGCCCTTAATATTT-CGGATAAGTTACTTAGTT
* *
16061757 AAGCTTGTTAAATTTGCCCTTATTATTTCGGATAAGTTTCTTAGTT
1 AAGCTTGTTAAATTTGCCCTTAATATTTCGGATAAGTTACTTAGTT
16061803 AA
1 AA
16061805 AGAAAATTTT
Statistics
Matches: 44, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
46 31 0.70
47 13 0.30
ACGTcount: A:0.28, C:0.13, G:0.15, T:0.45
Consensus pattern (46 bp):
AAGCTTGTTAAATTTGCCCTTAATATTTCGGATAAGTTACTTAGTT
Found at i:16062673 original size:45 final size:45
Alignment explanation
Indices: 16062609--16062740 Score: 223
Period size: 45 Copynumber: 3.0 Consensus size: 45
16062599 ATATCGCACA
*
16062609 ATACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCAGTGAG
1 ATACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAG
16062654 ATACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAG
1 ATACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAG
* *
16062699 ATACTATTCGGGCC-TCGAGCCTAGCAGGCGA-AATGCCGGTGA
1 ATACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGA
16062741 ATGAATTCGG
Statistics
Matches: 84, Mismatches: 3, Indels: 2
0.94 0.03 0.02
Matches are distributed among these distances:
43 11 0.13
44 15 0.18
45 58 0.69
ACGTcount: A:0.23, C:0.23, G:0.29, T:0.24
Consensus pattern (45 bp):
ATACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAG
Found at i:16062767 original size:86 final size:89
Alignment explanation
Indices: 16062609--16062770 Score: 215
Period size: 86 Copynumber: 1.8 Consensus size: 89
16062599 ATATCGCACA
* * * *
16062609 ATACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCAGTGAGATACTATTCGGGCCTTTGAG
1 ATACTATTCGGGCCTTCGAGCCTAGCAGGCGATAATGCCAGTGAGATAC-ATTCGGGCCTTTAAA
16062674 CCTAGCAGGCTATAATGCCGGTGAG
65 CCTAGCAGGCTATAATGCCGGTGAG
* **
16062699 ATACTATTCGGGCC-TCGAGCCTAGCAGGCGA-AATGCCGGTGA-ATGA-ATTCGGGTTTTTAAA
1 ATACTATTCGGGCCTTCGAGCCTAGCAGGCGATAATGCCAGTGAGAT-ACATTCGGGCCTTTAAA
16062760 CCTAGCAGGCT
65 CCTAGCAGGCT
16062771 GATTGCCGAT
Statistics
Matches: 64, Mismatches: 7, Indels: 6
0.83 0.09 0.08
Matches are distributed among these distances:
86 22 0.34
87 2 0.03
88 11 0.17
89 15 0.23
90 14 0.22
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (89 bp):
ATACTATTCGGGCCTTCGAGCCTAGCAGGCGATAATGCCAGTGAGATACATTCGGGCCTTTAAAC
CTAGCAGGCTATAATGCCGGTGAG
Found at i:16063298 original size:16 final size:18
Alignment explanation
Indices: 16063267--16063299 Score: 52
Period size: 16 Copynumber: 1.9 Consensus size: 18
16063257 AACTCGTCAC
16063267 ACTATCTATCATTTTGGT
1 ACTATCTATCATTTTGGT
16063285 ACTA-CTAT-ATTTTGG
1 ACTATCTATCATTTTGG
16063300 AGCTTGTATG
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 7 0.47
17 4 0.27
18 4 0.27
ACGTcount: A:0.24, C:0.15, G:0.12, T:0.48
Consensus pattern (18 bp):
ACTATCTATCATTTTGGT
Found at i:16065617 original size:29 final size:29
Alignment explanation
Indices: 16065552--16065617 Score: 69
Period size: 29 Copynumber: 2.3 Consensus size: 29
16065542 AAACAACCAA
* * *
16065552 AAAGGATTTCTTTTAAAAAATATCGTCAC
1 AAAGGCTTCCTTTTAAAAAATATCGCCAC
* * * *
16065581 AAAAGCTTCCTTTTAACAGATATCGCCAT
1 AAAGGCTTCCTTTTAAAAAATATCGCCAC
16065610 AAAGGCTT
1 AAAGGCTT
16065618 TCTTACGAAA
Statistics
Matches: 29, Mismatches: 8, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.38, C:0.18, G:0.12, T:0.32
Consensus pattern (29 bp):
AAAGGCTTCCTTTTAAAAAATATCGCCAC
Found at i:16071952 original size:27 final size:27
Alignment explanation
Indices: 16071928--16072241 Score: 316
Period size: 27 Copynumber: 11.7 Consensus size: 27
16071918 TTAGTTTACG
16071928 AAATTACCAAAATACCCTTGG-TT-TA
1 AAATTACCAAAATACCCTTGGTTTGTA
16071953 CAAATTA-CAAAATA-CCTCTGGTTTGTA
1 -AAATTACCAAAATACCCT-TGGTTTGTA
* * *
16071980 AAATTACTAGAATACCCTTGGTTTATA
1 AAATTACCAAAATACCCTTGGTTTGTA
* *
16072007 AAATCACCAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCTTGGTTTGTA
16072034 AAATTACCAAAATACCCTTGGTTTGTA
1 AAATTACCAAAATACCCTTGGTTTGTA
* *
16072061 AAATTATCAAAATACCCTTAGTTTGTA
1 AAATTACCAAAATACCCTTGGTTTGTA
16072088 AAATTACCAAAATACCCCTT-GTTTGTA
1 AAATTACCAAAATA-CCCTTGGTTTGTA
* * *
16072115 AAATTATCAAAATACCCCTAGTTTGTA
1 AAATTACCAAAATACCCTTGGTTTGTA
* * ** *
16072142 AAATAACCAAAATACCCCTAATTTGTG
1 AAATTACCAAAATACCCTTGGTTTGTA
** * *
16072169 AAATTACTGAAATACCCTCGACTTT-TA
1 AAATTACCAAAATACCCTTG-GTTTGTA
*** * **
16072196 AAATTATTGAAATACCCTCGACTTGTA
1 AAATTACCAAAATACCCTTGGTTTGTA
*
16072223 AAATTACCAAAGTACCCTT
1 AAATTACCAAAATACCCTT
16072242 AATTTATAGA
Statistics
Matches: 244, Mismatches: 35, Indels: 17
0.82 0.12 0.06
Matches are distributed among these distances:
24 3 0.01
25 10 0.04
26 20 0.08
27 200 0.82
28 11 0.05
ACGTcount: A:0.39, C:0.20, G:0.09, T:0.32
Consensus pattern (27 bp):
AAATTACCAAAATACCCTTGGTTTGTA
Found at i:16072266 original size:81 final size:81
Alignment explanation
Indices: 16072056--16072293 Score: 205
Period size: 81 Copynumber: 2.9 Consensus size: 81
16072046 TACCCTTGGT
* * * * * * * * **
16072056 TTGTAAAATTATCAAAATACCCTTAGTTTGTAAAATTACCAAAATACCCCTTG-TTTGTAAAATT
1 TTGTAAAATAACCAAAATACCCCTAATTTATGAAATTACCGAAATA-CCCTCGATTTACAAAATT
** * *
16072120 ATCAAAATACCC-CTAGT
65 ATTGAAATACCCTCGA-C
* * *
16072137 TTGTAAAATAACCAAAATACCCCTAATTTGTGAAATTACTGAAATACCCTCGACTTT-TAAAATT
1 TTGTAAAATAACCAAAATACCCCTAATTTATGAAATTACCGAAATACCCTCGA-TTTACAAAATT
16072201 ATTGAAATACCCTCGAC
65 ATTGAAATACCCTCGAC
* * * ***
16072218 TTGTAAAATTACCAAAGTACCCTTAATTTAT-AGAATTACCGTTTTACCCTCGATTTACAAAATT
1 TTGTAAAATAACCAAAATACCCCTAATTTATGA-AATTACCGAAATACCCTCGATTTACAAAATT
16072282 ATTGAAATACCC
65 ATTGAAATACCC
16072294 CTGTAGGGTA
Statistics
Matches: 131, Mismatches: 21, Indels: 10
0.81 0.13 0.06
Matches are distributed among these distances:
80 9 0.07
81 117 0.89
82 5 0.04
ACGTcount: A:0.39, C:0.20, G:0.08, T:0.34
Consensus pattern (81 bp):
TTGTAAAATAACCAAAATACCCCTAATTTATGAAATTACCGAAATACCCTCGATTTACAAAATTA
TTGAAATACCCTCGAC
Found at i:16072292 original size:27 final size:27
Alignment explanation
Indices: 16071978--16072293 Score: 103
Period size: 27 Copynumber: 11.7 Consensus size: 27
16071968 CTCTGGTTTG
* *
16071978 TAAAATTACT-AGAATACCCTTGGTTTA
1 TAAAATTACTGA-AATACCCTCGATTTA
* ** * *
16072005 TAAAATCACCAAAATACCC-CTGGTTTG
1 TAAAATTACTGAAATACCCTC-GATTTA
** * * *
16072032 TAAAATTACCAAAATACCCTTGGTTTG
1 TAAAATTACTGAAATACCCTCGATTTA
* * *
16072059 TAAAATTA-TCAAAATACCCT-TAGTTTG
1 TAAAATTACT-GAAATACCCTCGA-TTTA
** * *
16072086 TAAAATTACCAAAATACCCCTTG-TTTG
1 TAAAATTACTGAAATA-CCCTCGATTTA
* * *
16072113 TAAAATTA-TCAAAATACCC-CTAGTTTG
1 TAAAATTACT-GAAATACCCTCGA-TTTA
* ** * *
16072140 TAAAATAACCAAAATACCC-CTAATTTG
1 TAAAATTACTGAAATACCCTC-GATTTA
*
16072167 TGAAATTACTGAAATACCCTCGACTTT-
1 TAAAATTACTGAAATACCCTCGA-TTTA
* * *
16072194 TAAAATTATTGAAATACCCTCGACTTG
1 TAAAATTACTGAAATACCCTCGATTTA
* **
16072221 TAAAATTAC-CAAAGTACCCTTAATTTA
1 TAAAATTACTGAAA-TACCCTCGATTTA
* * ***
16072248 TAGAATTACCGTTTTACCCTCGATTTA
1 TAAAATTACTGAAATACCCTCGATTTA
* *
16072275 CAAAATTATTGAAATACCC
1 TAAAATTACTGAAATACCC
16072294 CTGTAGGGTA
Statistics
Matches: 226, Mismatches: 45, Indels: 36
0.74 0.15 0.12
Matches are distributed among these distances:
26 8 0.04
27 208 0.92
28 10 0.04
ACGTcount: A:0.39, C:0.20, G:0.09, T:0.33
Consensus pattern (27 bp):
TAAAATTACTGAAATACCCTCGATTTA
Found at i:16072308 original size:27 final size:27
Alignment explanation
Indices: 16072285--16073283 Score: 1314
Period size: 27 Copynumber: 37.0 Consensus size: 27
16072275 CAAAATTATT
16072285 GAAATACCCCTGTAGGGTAGAATTACC
1 GAAATACCCCTGTAGGGTAGAATTACC
* * * *
16072312 AAAATACCCTTGTAGGGTAGAAATACT
1 GAAATACCCCTGTAGGGTAGAATTACC
* * *
16072339 GAAATACCCTTGTAGGGTAGAAATATC
1 GAAATACCCCTGTAGGGTAGAATTACC
* * * *
16072366 AAAATACCCTTGTAGGGTAGAAATATC
1 GAAATACCCCTGTAGGGTAGAATTACC
* *
16072393 GAAATACCCTTATAGGGTAGAATTACC
1 GAAATACCCCTGTAGGGTAGAATTACC
16072420 GAAATACCCCTGTAGGGTAGAATTACC
1 GAAATACCCCTGTAGGGTAGAATTACC
*
16072447 GAAATACCCCTGTAGGGTAGAATTACT
1 GAAATACCCCTGTAGGGTAGAATTACC
*
16072474 GAAATACCCCTATAGGGTAGAATTACC
1 GAAATACCCCTGTAGGGTAGAATTACC
* * * *
16072501 GAAATACCCTTATAAGGTAGAAATACC
1 GAAATACCCCTGTAGGGTAGAATTACC
* *
16072528 GAAATACCCCTGTAGGGTATAATTACT
1 GAAATACCCCTGTAGGGTAGAATTACC
*
16072555 GAAATACCCCTGTAGGGTAGAATTACT
1 GAAATACCCCTGTAGGGTAGAATTACC
*
16072582 GAAATACCCCTATAGGGTAGAATTACC
1 GAAATACCCCTGTAGGGTAGAATTACC
* * * *
16072609 GAAATACCCTTATAAGGTAGAAATACC
1 GAAATACCCCTGTAGGGTAGAATTACC
* *
16072636 GAAATACCCCTGTAGGGTATAATTACT
1 GAAATACCCCTGTAGGGTAGAATTACC
*
16072663 GAAATACCCCTGTAGGGTAGAATTACT
1 GAAATACCCCTGTAGGGTAGAATTACC
*
16072690 GAAATACCCCTATAGGGTAGAATTACC
1 GAAATACCCCTGTAGGGTAGAATTACC
* * * *
16072717 GAAATACCCTTATAAGGTAGAAATACC
1 GAAATACCCCTGTAGGGTAGAATTACC
* *
16072744 GAAATACCCCTGTAGGGTATAATTACT
1 GAAATACCCCTGTAGGGTAGAATTACC
*
16072771 GAAATACCCCTGTAGGGTAGAATTACT
1 GAAATACCCCTGTAGGGTAGAATTACC
*
16072798 GAAATACCCCTATAGGGTAGAATTACC
1 GAAATACCCCTGTAGGGTAGAATTACC
* * * *
16072825 GAAATACCCTTATAAGGTAGAAATACC
1 GAAATACCCCTGTAGGGTAGAATTACC
* *
16072852 GAAATACCCCTGTAGGGTATAATTACT
1 GAAATACCCCTGTAGGGTAGAATTACC
*
16072879 GAAATACCCCTGTAGGGTAGAATTACT
1 GAAATACCCCTGTAGGGTAGAATTACC
*
16072906 GAAATACCCCTATAGGGTAGAATTACC
1 GAAATACCCCTGTAGGGTAGAATTACC
* * * *
16072933 GAAATACCCTTATAAGGTAGAAATACC
1 GAAATACCCCTGTAGGGTAGAATTACC
16072960 GAAATACCCCTGTAGGGTAGAATTACC
1 GAAATACCCCTGTAGGGTAGAATTACC
*
16072987 GAAATACCCCTGTAGGGTAGAATTACT
1 GAAATACCCCTGTAGGGTAGAATTACC
*
16073014 GAAATACCCCTATAGGGTAGAATTACC
1 GAAATACCCCTGTAGGGTAGAATTACC
* *
16073041 GAAATACCCTTGTAGGGTAGAAATACC
1 GAAATACCCCTGTAGGGTAGAATTACC
* * * * *
16073068 GAAATACACCTGTAGGATAAAAATATC
1 GAAATACCCCTGTAGGGTAGAATTACC
* *
16073095 GAAATACCCCTGTAGGGTAAAAATACC
1 GAAATACCCCTGTAGGGTAGAATTACC
* *
16073122 GAAATACCCCTATAGGGTAGAATTACT
1 GAAATACCCCTGTAGGGTAGAATTACC
*
16073149 AAAATACCCCTGTAGGGTAGAATTACC
1 GAAATACCCCTGTAGGGTAGAATTACC
* * * *
16073176 GAAATACCCTTATAAGGTAGAAATACC
1 GAAATACCCCTGTAGGGTAGAATTACC
* *
16073203 GAAATACCCCTGTAGGGTATAATTACT
1 GAAATACCCCTGTAGGGTAGAATTACC
*
16073230 GAAATACCCCTGTAGGGTAGAATTATC
1 GAAATACCCCTGTAGGGTAGAATTACC
* * * *
16073257 GAGATACCCTTGTGGGGTAAAATTACC
1 GAAATACCCCTGTAGGGTAGAATTACC
16073284 ATTTTACCCC
Statistics
Matches: 860, Mismatches: 112, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 860 1.00
ACGTcount: A:0.37, C:0.19, G:0.19, T:0.24
Consensus pattern (27 bp):
GAAATACCCCTGTAGGGTAGAATTACC
Found at i:16073292 original size:108 final size:108
Alignment explanation
Indices: 16072285--16073267 Score: 1520
Period size: 108 Copynumber: 9.1 Consensus size: 108
16072275 CAAAATTATT
* * * * * * * *
16072285 GAAATACCCCTGTAGGGTAGAATTACCAAAATACCCTTGTAGGGTAGAAATACTGAAATACCCTT
1 GAAATACCCTTATAAGGTAGAAATACCGAAATACCCCTGTAGGGTAGAATTACTGAAATACCCCT
* * * * * *
16072350 GTAGGGTAGAAATA-TCAAAATACCCTTGTAGGGTAGAAATATC
66 GTAGGGTAGAATTACT-GAAATACCCCTATAGGGTAGAATTACC
* * *
16072393 GAAATACCCTTATAGGGTAGAATTACCGAAATACCCCTGTAGGGTAGAATTACCGAAATACCCCT
1 GAAATACCCTTATAAGGTAGAAATACCGAAATACCCCTGTAGGGTAGAATTACTGAAATACCCCT
16072458 GTAGGGTAGAATTACTGAAATACCCCTATAGGGTAGAATTACC
66 GTAGGGTAGAATTACTGAAATACCCCTATAGGGTAGAATTACC
*
16072501 GAAATACCCTTATAAGGTAGAAATACCGAAATACCCCTGTAGGGTATAATTACTGAAATACCCCT
1 GAAATACCCTTATAAGGTAGAAATACCGAAATACCCCTGTAGGGTAGAATTACTGAAATACCCCT
16072566 GTAGGGTAGAATTACTGAAATACCCCTATAGGGTAGAATTACC
66 GTAGGGTAGAATTACTGAAATACCCCTATAGGGTAGAATTACC
*
16072609 GAAATACCCTTATAAGGTAGAAATACCGAAATACCCCTGTAGGGTATAATTACTGAAATACCCCT
1 GAAATACCCTTATAAGGTAGAAATACCGAAATACCCCTGTAGGGTAGAATTACTGAAATACCCCT
16072674 GTAGGGTAGAATTACTGAAATACCCCTATAGGGTAGAATTACC
66 GTAGGGTAGAATTACTGAAATACCCCTATAGGGTAGAATTACC
*
16072717 GAAATACCCTTATAAGGTAGAAATACCGAAATACCCCTGTAGGGTATAATTACTGAAATACCCCT
1 GAAATACCCTTATAAGGTAGAAATACCGAAATACCCCTGTAGGGTAGAATTACTGAAATACCCCT
16072782 GTAGGGTAGAATTACTGAAATACCCCTATAGGGTAGAATTACC
66 GTAGGGTAGAATTACTGAAATACCCCTATAGGGTAGAATTACC
*
16072825 GAAATACCCTTATAAGGTAGAAATACCGAAATACCCCTGTAGGGTATAATTACTGAAATACCCCT
1 GAAATACCCTTATAAGGTAGAAATACCGAAATACCCCTGTAGGGTAGAATTACTGAAATACCCCT
16072890 GTAGGGTAGAATTACTGAAATACCCCTATAGGGTAGAATTACC
66 GTAGGGTAGAATTACTGAAATACCCCTATAGGGTAGAATTACC
*
16072933 GAAATACCCTTATAAGGTAGAAATACCGAAATACCCCTGTAGGGTAGAATTACCGAAATACCCCT
1 GAAATACCCTTATAAGGTAGAAATACCGAAATACCCCTGTAGGGTAGAATTACTGAAATACCCCT
16072998 GTAGGGTAGAATTACTGAAATACCCCTATAGGGTAGAATTACC
66 GTAGGGTAGAATTACTGAAATACCCCTATAGGGTAGAATTACC
* * * * * *
16073041 GAAATACCCTTGTAGGGTAGAAATACCGAAATACACCTGTAGGATAAAAATA-TCGAAATACCCC
1 GAAATACCCTTATAAGGTAGAAATACCGAAATACCCCTGTAGGGTAGAATTACT-GAAATACCCC
* * * *
16073105 TGTAGGGTAAAAATACCGAAATACCCCTATAGGGTAGAATTACT
65 TGTAGGGTAGAATTACTGAAATACCCCTATAGGGTAGAATTACC
* * * * * * * * * *
16073149 AAAATACCCCTGTAGGGTAGAATTACCGAAATACCCTTATAAGGTAGAAATACCGAAATACCCCT
1 GAAATACCCTTATAAGGTAGAAATACCGAAATACCCCTGTAGGGTAGAATTACTGAAATACCCCT
* * *
16073214 GTAGGGTATAATTACTGAAATACCCCTGTAGGGTAGAATTATC
66 GTAGGGTAGAATTACTGAAATACCCCTATAGGGTAGAATTACC
*
16073257 GAGATACCCTT
1 GAAATACCCTT
16073268 GTGGGGTAAA
Statistics
Matches: 823, Mismatches: 49, Indels: 6
0.94 0.06 0.01
Matches are distributed among these distances:
108 822 1.00
109 1 0.00
ACGTcount: A:0.37, C:0.19, G:0.19, T:0.24
Consensus pattern (108 bp):
GAAATACCCTTATAAGGTAGAAATACCGAAATACCCCTGTAGGGTAGAATTACTGAAATACCCCT
GTAGGGTAGAATTACTGAAATACCCCTATAGGGTAGAATTACC
Found at i:16073571 original size:27 final size:26
Alignment explanation
Indices: 16073527--16073578 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
16073517 CTCGCTGCAA
*
16073527 TCTGGTGGCCTCGCCACATATATCTGT
1 TCTGGTGACCTCGCCACA-ATATCTGT
* *
16073554 TCTGGTGACTTCGTCACAATATCTG
1 TCTGGTGACCTCGCCACAATATCTG
16073579 GCAGCCTCGC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.17, C:0.27, G:0.21, T:0.35
Consensus pattern (26 bp):
TCTGGTGACCTCGCCACAATATCTGT
Found at i:16073657 original size:27 final size:26
Alignment explanation
Indices: 16073617--16073676 Score: 66
Period size: 27 Copynumber: 2.3 Consensus size: 26
16073607 CCACATATAT
* *
16073617 ATATCTATTCTGGTGGCCTAGCCACA
1 ATATCTGTTCTGGTGACCTAGCCACA
* * *
16073643 ATATCTGTATCTGGTGACTTCGTCACA
1 ATATCTGT-TCTGGTGACCTAGCCACA
16073670 ATATCTG
1 ATATCTG
16073677 GCAGCCTCGC
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
26 7 0.25
27 21 0.75
ACGTcount: A:0.23, C:0.23, G:0.18, T:0.35
Consensus pattern (26 bp):
ATATCTGTTCTGGTGACCTAGCCACA
Found at i:16073826 original size:6 final size:6
Alignment explanation
Indices: 16073795--16073851 Score: 55
Period size: 6 Copynumber: 9.3 Consensus size: 6
16073785 TTGCATTCAC
* *
16073795 ATTCTG ATTTTG ATTCTG -TCACCTG ATTCTG ATTCTG ATTCTG ATTCT-
1 ATTCTG ATTCTG ATTCTG AT--TCTG ATTCTG ATTCTG ATTCTG ATTCTG
16073843 AGTTCTG AT
1 A-TTCTG AT
16073852 AATGTTTCTT
Statistics
Matches: 42, Mismatches: 4, Indels: 10
0.75 0.07 0.18
Matches are distributed among these distances:
5 2 0.05
6 35 0.83
7 4 0.10
8 1 0.02
ACGTcount: A:0.18, C:0.18, G:0.16, T:0.49
Consensus pattern (6 bp):
ATTCTG
Found at i:16075750 original size:2 final size:2
Alignment explanation
Indices: 16075743--16075808 Score: 114
Period size: 2 Copynumber: 33.0 Consensus size: 2
16075733 ATTTTTGAAA
* *
16075743 AG AG AG AG GG AG AG AG AG AG AG AG AG AG AG AG AA AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
16075785 AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG
16075809 TTGTTCTGGT
Statistics
Matches: 60, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 60 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:16078690 original size:57 final size:58
Alignment explanation
Indices: 16078590--16078736 Score: 165
Period size: 57 Copynumber: 2.5 Consensus size: 58
16078580 CGAGCCACAT
* * *
16078590 ATCATATTACAGGATTACCAGTCCAGGCTAAATCCATTATGTAACGTATGCTCAAAAGAG
1 ATCATA-T-CAGGATTACCAGTCCAGGCTAAACCCAGTATGTAACATATGCTCAAAAGAG
* * *
16078650 CTCA-A-CTAGGATTACCAGTCCAGGCTAAACCCTAGT-TGTAACATATGCTCGAGAGAG
1 ATCATATC-AGGATTACCAGTCCAGGCTAAACCC-AGTATGTAACATATGCTCAAAAGAG
* *
16078707 ATTATATCAGGATTACCCGTCCAGGCTAAA
1 ATCATATCAGGATTACCAGTCCAGGCTAAA
16078737 TCCTTTCTAT
Statistics
Matches: 74, Mismatches: 9, Indels: 10
0.80 0.10 0.11
Matches are distributed among these distances:
56 1 0.01
57 44 0.59
58 24 0.32
59 2 0.03
60 3 0.04
ACGTcount: A:0.34, C:0.22, G:0.18, T:0.25
Consensus pattern (58 bp):
ATCATATCAGGATTACCAGTCCAGGCTAAACCCAGTATGTAACATATGCTCAAAAGAG
Found at i:16080104 original size:49 final size:49
Alignment explanation
Indices: 16080032--16080132 Score: 184
Period size: 49 Copynumber: 2.1 Consensus size: 49
16080022 TAGAAGATAA
*
16080032 ATTTTCACACAAGGTATGGGCACTACGAATTCCTGGTTTTGCCTTTTGG
1 ATTTTCACACAAGGTATGGGCACTACGAATTCCTGGTTTTGCCCTTTGG
*
16080081 ATTTTCACACAAGGTATGGGCACTATGAATTCCTGGTTTTGCCCTTTGG
1 ATTTTCACACAAGGTATGGGCACTACGAATTCCTGGTTTTGCCCTTTGG
16080130 ATT
1 ATT
16080133 AACAAATGCA
Statistics
Matches: 50, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
49 50 1.00
ACGTcount: A:0.21, C:0.20, G:0.22, T:0.38
Consensus pattern (49 bp):
ATTTTCACACAAGGTATGGGCACTACGAATTCCTGGTTTTGCCCTTTGG
Found at i:16090302 original size:42 final size:43
Alignment explanation
Indices: 16090141--16090302 Score: 145
Period size: 42 Copynumber: 3.8 Consensus size: 43
16090131 TATCATACCA
* **
16090141 ATGCCATATCCCAGATATGGTCTTACATGGGA-TCTCATATCG
1 ATGCCATATCCCAGATATGGTCTTACACGATAGTCTCATATCG
* * ** * * *
16090183 ATGCCAATAGCCCAGCTATGGTCTTGTACGAAACT-TCATTTCG
1 ATGCC-ATATCCCAGATATGGTCTTACACGATAGTCTCATATCG
* * * *
16090226 AGGCTATAACCCAGATATGGCCTTACACGA-AGTCTCATA-CTG
1 ATGCCATATCCCAGATATGGTCTTACACGATAGTCTCATATC-G
16090268 ATGCCATATCCCAGATATGGTCTTACAC-ATAGTCT
1 ATGCCATATCCCAGATATGGTCTTACACGATAGTCT
16090303 TAGTAACCCT
Statistics
Matches: 94, Mismatches: 21, Indels: 10
0.75 0.17 0.08
Matches are distributed among these distances:
41 4 0.04
42 59 0.63
43 30 0.32
44 1 0.01
ACGTcount: A:0.28, C:0.25, G:0.18, T:0.29
Consensus pattern (43 bp):
ATGCCATATCCCAGATATGGTCTTACACGATAGTCTCATATCG
Found at i:16093664 original size:36 final size:35
Alignment explanation
Indices: 16093617--16093781 Score: 152
Period size: 36 Copynumber: 4.6 Consensus size: 35
16093607 ACTCTCTAGT
*
16093617 TTGGTGTGTTTCGGTTGGATTAGCTTTTCGGAGCCA
1 TTGGTGTGTTTCGGTTGGATTAGCTCTTCGGAG-CA
16093653 TTGGTGTGTTTCGGTTGGATTAGCTCTTCGGAGCCA
1 TTGGTGTGTTTCGGTTGGATTAGCTCTTCGGAG-CA
* * * ** *
16093689 TCGGTATGTGTCGAATGGATTAGCTCTTATGG-GCA
1 TTGGTGTGTTTCGGTTGGATTAGCTCTT-CGGAGCA
* * * **
16093724 TTTGGTATGTTTCGGATGGACTAGCTCTTATGAGCA
1 -TTGGTGTGTTTCGGTTGGATTAGCTCTTCGGAGCA
* *
16093760 TCTGGTGTGTTTTGGTGGGATT
1 T-TGGTGTGTTTCGGTTGGATT
16093782 GTCGATGTAC
Statistics
Matches: 107, Mismatches: 18, Indels: 8
0.80 0.14 0.06
Matches are distributed among these distances:
35 4 0.04
36 101 0.94
37 2 0.02
ACGTcount: A:0.14, C:0.13, G:0.33, T:0.40
Consensus pattern (35 bp):
TTGGTGTGTTTCGGTTGGATTAGCTCTTCGGAGCA
Found at i:16106186 original size:41 final size:41
Alignment explanation
Indices: 16106141--16106224 Score: 100
Period size: 41 Copynumber: 2.0 Consensus size: 41
16106131 CTCAAAGTTT
* *
16106141 GATTTTATACACCGGCA-ATAAGCTTGCTAGGCAT-AAAGCCC
1 GATTTAATACACCAGCACA-AAGCTTGCTAGGC-TCAAAGCCC
* *
16106182 GATTTAATTCACCAGCACAAGGCTTGCTAGGCTCAAAGCCC
1 GATTTAATACACCAGCACAAAGCTTGCTAGGCTCAAAGCCC
16106223 GA
1 GA
16106225 ATATCACTAT
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
40 1 0.03
41 35 0.95
42 1 0.03
ACGTcount: A:0.31, C:0.26, G:0.20, T:0.23
Consensus pattern (41 bp):
GATTTAATACACCAGCACAAAGCTTGCTAGGCTCAAAGCCC
Found at i:16117400 original size:7 final size:7
Alignment explanation
Indices: 16117388--16117412 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
16117378 AGTAAAAAGA
16117388 TATTTAT
1 TATTTAT
16117395 TATTTAT
1 TATTTAT
16117402 TATTTAT
1 TATTTAT
16117409 TATT
1 TATT
16117413 AAGTTAAAAA
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:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (7 bp):
TATTTAT
Found at i:16117727 original size:13 final size:13
Alignment explanation
Indices: 16117695--16117720 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
16117685 AAGTAAGGAG
16117695 AAAGAAAGAAAAA
1 AAAGAAAGAAAAA
16117708 AAAGAAAGAAAAA
1 AAAGAAAGAAAAA
16117721 GGAGAAATAG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (13 bp):
AAAGAAAGAAAAA
Found at i:16118621 original size:23 final size:22
Alignment explanation
Indices: 16118594--16118647 Score: 74
Period size: 21 Copynumber: 2.5 Consensus size: 22
16118584 CAAGCACTTT
16118594 ATGTGTCGTATATTAGGCACCTC
1 ATGTGTCGT-TATTAGGCACCTC
*
16118617 GTGTGTCG-TATTAGGCACCTC
1 ATGTGTCGTTATTAGGCACCTC
*
16118638 ATTTGTCGTT
1 ATGTGTCGTT
16118648 TCAGGCATTT
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
21 19 0.70
22 1 0.04
23 7 0.26
ACGTcount: A:0.17, C:0.20, G:0.24, T:0.39
Consensus pattern (22 bp):
ATGTGTCGTTATTAGGCACCTC
Found at i:16118644 original size:21 final size:21
Alignment explanation
Indices: 16118594--16118654 Score: 70
Period size: 21 Copynumber: 2.8 Consensus size: 21
16118584 CAAGCACTTT
16118594 ATGTGTCGTATATTAGGCACCTC
1 ATGTGTCG--TATTAGGCACCTC
*
16118617 GTGTGTCGTATTAGGCACCTC
1 ATGTGTCGTATTAGGCACCTC
*
16118638 ATTTGTCGT-TTCAGGCA
1 ATGTGTCGTATT-AGGCA
16118655 TTTATGTGTT
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
20 2 0.06
21 25 0.74
23 7 0.21
ACGTcount: A:0.18, C:0.21, G:0.25, T:0.36
Consensus pattern (21 bp):
ATGTGTCGTATTAGGCACCTC
Found at i:16124744 original size:20 final size:20
Alignment explanation
Indices: 16124719--16124759 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 20
16124709 TGAGATTAAT
*
16124719 AGCAGGAATTAGGAGTATAA
1 AGCAGGAATGAGGAGTATAA
16124739 AGCAGGAATGAGGAGTATAA
1 AGCAGGAATGAGGAGTATAA
16124759 A
1 A
16124760 CTCCTCAAAC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.46, C:0.05, G:0.32, T:0.17
Consensus pattern (20 bp):
AGCAGGAATGAGGAGTATAA
Found at i:16124834 original size:39 final size:39
Alignment explanation
Indices: 16124774--16124852 Score: 122
Period size: 39 Copynumber: 2.0 Consensus size: 39
16124764 TCAAACCACC
** * *
16124774 ATGATCATTCAATGGAGAGGTAGGTCGAGCTTAGACTAT
1 ATGATCATTCAACAGAAAGGTAAGTCGAGCTTAGACTAT
16124813 ATGATCATTCAACAGAAAGGTAAGTCGAGCTTAGACTAT
1 ATGATCATTCAACAGAAAGGTAAGTCGAGCTTAGACTAT
16124852 A
1 A
16124853 AACAAGCGCT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
39 36 1.00
ACGTcount: A:0.35, C:0.14, G:0.24, T:0.27
Consensus pattern (39 bp):
ATGATCATTCAACAGAAAGGTAAGTCGAGCTTAGACTAT
Found at i:16131341 original size:17 final size:18
Alignment explanation
Indices: 16131319--16131352 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
16131309 CACATTGAAG
16131319 TGTTTT-ATCGAAAACCT
1 TGTTTTCATCGAAAACCT
*
16131336 TGTTTTCATTGAAAACC
1 TGTTTTCATCGAAAACC
16131353 CTTCTTTGAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.29, C:0.18, G:0.12, T:0.41
Consensus pattern (18 bp):
TGTTTTCATCGAAAACCT
Found at i:16131967 original size:24 final size:23
Alignment explanation
Indices: 16131939--16131984 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
16131929 ACGGATCCCA
*
16131939 TCCATCCAACCGTTACACACCATC
1 TCCATCC-ACCGATACACACCATC
*
16131963 TCCATCCGCCGATACACACCAT
1 TCCATCCACCGATACACACCAT
16131985 GTGGGGATAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
23 13 0.65
24 7 0.35
ACGTcount: A:0.28, C:0.46, G:0.07, T:0.20
Consensus pattern (23 bp):
TCCATCCACCGATACACACCATC
Found at i:16134111 original size:8 final size:8
Alignment explanation
Indices: 16134098--16134128 Score: 53
Period size: 8 Copynumber: 3.9 Consensus size: 8
16134088 CTAGATCGGT
16134098 AAAAGCCG
1 AAAAGCCG
16134106 AAAAGCCG
1 AAAAGCCG
*
16134114 AAATGCCG
1 AAAAGCCG
16134122 AAAAGCC
1 AAAAGCC
16134129 AGTATTTTGG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.48, C:0.26, G:0.23, T:0.03
Consensus pattern (8 bp):
AAAAGCCG
Found at i:16134439 original size:28 final size:28
Alignment explanation
Indices: 16134376--16134440 Score: 103
Period size: 28 Copynumber: 2.3 Consensus size: 28
16134366 ATTTACTAGA
* *
16134376 ATACCCCCATGTATGCAAAATTACCATT
1 ATACCCCTATGTATGCAAAATGACCATT
*
16134404 ATACCCCTATGTATGCAAAATGACCTTT
1 ATACCCCTATGTATGCAAAATGACCATT
16134432 ATACCCCTA
1 ATACCCCTA
16134441 GGGTTAATTT
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
28 34 1.00
ACGTcount: A:0.34, C:0.29, G:0.08, T:0.29
Consensus pattern (28 bp):
ATACCCCTATGTATGCAAAATGACCATT
Found at i:16134604 original size:27 final size:28
Alignment explanation
Indices: 16134546--16134635 Score: 112
Period size: 27 Copynumber: 3.2 Consensus size: 28
16134536 AGGAAGCGTC
*
16134546 CTGGTGGCTA-TGCCACAAATTATCTGTT
1 CTGGTGGC-ACTGCCACAAAATATCTGTT
* **
16134574 CTGGTGGCCCTGCCAC-GTATATCTGTT
1 CTGGTGGCACTGCCACAAAATATCTGTT
16134601 CTGGTGGCACTGCCACAAAATATCTGTAT
1 CTGGTGGCACTGCCACAAAATATCTGT-T
16134630 CTGGTG
1 CTGGTG
16134636 ACTCTGTCAC
Statistics
Matches: 52, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
27 23 0.44
28 22 0.42
29 7 0.13
ACGTcount: A:0.19, C:0.24, G:0.24, T:0.32
Consensus pattern (28 bp):
CTGGTGGCACTGCCACAAAATATCTGTT
Found at i:16134646 original size:29 final size:28
Alignment explanation
Indices: 16134556--16134646 Score: 94
Period size: 27 Copynumber: 3.2 Consensus size: 28
16134546 CTGGTGGCTA
* * *
16134556 TGCCACAAATTATCTGTTCTGGTGGCCC
1 TGCCACAAAATATCTGTTCTGGTGACAC
** *
16134584 TGCCAC-GTATATCTGTTCTGGTGGCAC
1 TGCCACAAAATATCTGTTCTGGTGACAC
*
16134611 TGCCACAAAATATCTGTATCTGGTGACTC
1 TGCCACAAAATATCTGT-TCTGGTGACAC
*
16134640 TGTCACA
1 TGCCACA
16134647 TTTTCTGTAT
Statistics
Matches: 52, Mismatches: 9, Indels: 3
0.81 0.14 0.05
Matches are distributed among these distances:
27 23 0.44
28 14 0.27
29 15 0.29
ACGTcount: A:0.21, C:0.26, G:0.21, T:0.32
Consensus pattern (28 bp):
TGCCACAAAATATCTGTTCTGGTGACAC
Found at i:16134654 original size:55 final size:56
Alignment explanation
Indices: 16134546--16134660 Score: 137
Period size: 55 Copynumber: 2.1 Consensus size: 56
16134536 AGGAAGCGTC
* * *
16134546 CTGGTGGCTATGCCACAAATTATCTGTTCTGGTGGCCCTGCCACGTATATCTGT-T
1 CTGGTGGCTATGCCACAAAATATCTGTTCTGGTGACCCTGCCACATATATCTGTAT
* * *
16134601 CTGGTGGC-ACTGCCACAAAATATCTGTATCTGGTGACTCTGTCACAT-TTTCTGTAT
1 CTGGTGGCTA-TGCCACAAAATATCTGT-TCTGGTGACCCTGCCACATATATCTGTAT
16134657 CTGG
1 CTGG
16134661 CAGCCATGCT
Statistics
Matches: 51, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
54 1 0.02
55 30 0.59
56 20 0.39
ACGTcount: A:0.18, C:0.24, G:0.23, T:0.35
Consensus pattern (56 bp):
CTGGTGGCTATGCCACAAAATATCTGTTCTGGTGACCCTGCCACATATATCTGTAT
Found at i:16138802 original size:19 final size:19
Alignment explanation
Indices: 16138780--16138816 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
16138770 CAATAACTAA
16138780 CATAACCATCATAGGCCAT
1 CATAACCATCATAGGCCAT
*
16138799 CATAACCATTATAGGCCA
1 CATAACCATCATAGGCCA
16138817 ACATTCAATG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.38, C:0.30, G:0.11, T:0.22
Consensus pattern (19 bp):
CATAACCATCATAGGCCAT
Found at i:16142093 original size:39 final size:39
Alignment explanation
Indices: 16142050--16142124 Score: 114
Period size: 39 Copynumber: 1.9 Consensus size: 39
16142040 ATCAAACTCA
* * *
16142050 AATAACTATTTAATTATTAGTCTAAATTTTGTACCATCC
1 AATAACAATTTAATCACTAGTCTAAATTTTGTACCATCC
*
16142089 AATAACAATTTTATCACTAGTCTAAATTTTGTACCA
1 AATAACAATTTAATCACTAGTCTAAATTTTGTACCA
16142125 CCCATTAGTA
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
39 32 1.00
ACGTcount: A:0.37, C:0.16, G:0.05, T:0.41
Consensus pattern (39 bp):
AATAACAATTTAATCACTAGTCTAAATTTTGTACCATCC
Found at i:16150805 original size:46 final size:48
Alignment explanation
Indices: 16150747--16150840 Score: 138
Period size: 49 Copynumber: 2.0 Consensus size: 48
16150737 AATACTAACC
**
16150747 GCTCCTATCTTATC-ACGAA-AAATAAATTCAATCCAAAATAATGGAA
1 GCTCCTATCTTATCAAAAAATAAATAAATTCAATCCAAAATAATGGAA
*
16150793 GCTCTTATCTTATCAAAAAAATAAATAAATTCAATCCAAAATAATGGA
1 GCTCCTATCTTATC-AAAAAATAAATAAATTCAATCCAAAATAATGGA
16150841 CAATATATTA
Statistics
Matches: 42, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
46 13 0.31
48 3 0.07
49 26 0.62
ACGTcount: A:0.48, C:0.17, G:0.07, T:0.28
Consensus pattern (48 bp):
GCTCCTATCTTATCAAAAAATAAATAAATTCAATCCAAAATAATGGAA
Found at i:16150999 original size:20 final size:21
Alignment explanation
Indices: 16150971--16151033 Score: 60
Period size: 20 Copynumber: 3.1 Consensus size: 21
16150961 CAAAAATCTC
*
16150971 AAGAGAACAAA-AAAGAACAA
1 AAGAAAACAAAGAAAGAACAA
* *
16150991 AAGAAAACAAAGAAATAAGAA
1 AAGAAAACAAAGAAAGAACAA
*
16151012 AAGAAGAA-TAAG-AAGAACAA
1 AAGAA-AACAAAGAAAGAACAA
16151032 AA
1 AA
16151034 CCAAAATTAG
Statistics
Matches: 35, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
20 18 0.51
21 15 0.43
22 2 0.06
ACGTcount: A:0.75, C:0.06, G:0.16, T:0.03
Consensus pattern (21 bp):
AAGAAAACAAAGAAAGAACAA
Found at i:16151921 original size:23 final size:23
Alignment explanation
Indices: 16151895--16151940 Score: 83
Period size: 23 Copynumber: 2.0 Consensus size: 23
16151885 TTGCCCAAGT
*
16151895 ATGAACCTGTAACACCCCATACC
1 ATGAACATGTAACACCCCATACC
16151918 ATGAACATGTAACACCCCATACC
1 ATGAACATGTAACACCCCATACC
16151941 CAACTCGATT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.37, C:0.37, G:0.09, T:0.17
Consensus pattern (23 bp):
ATGAACATGTAACACCCCATACC
Found at i:16156162 original size:15 final size:16
Alignment explanation
Indices: 16156136--16156166 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
16156126 TGTTTCTTGC
16156136 TTTTAGATCATATATA
1 TTTTAGATCATATATA
16156152 TTTTA-ATCATATATA
1 TTTTAGATCATATATA
16156167 AGATAAAAAC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 10 0.67
16 5 0.33
ACGTcount: A:0.39, C:0.06, G:0.03, T:0.52
Consensus pattern (16 bp):
TTTTAGATCATATATA
Found at i:16159097 original size:7 final size:7
Alignment explanation
Indices: 16159080--16159113 Score: 59
Period size: 7 Copynumber: 4.7 Consensus size: 7
16159070 AAATATGGAC
16159080 TAAACTAT
1 TAAA-TAT
16159088 TAAATAT
1 TAAATAT
16159095 TAAATAT
1 TAAATAT
16159102 TAAATAT
1 TAAATAT
16159109 TAAAT
1 TAAAT
16159114 TTTTAAGTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
7 22 0.85
8 4 0.15
ACGTcount: A:0.56, C:0.03, G:0.00, T:0.41
Consensus pattern (7 bp):
TAAATAT
Found at i:16159129 original size:14 final size:14
Alignment explanation
Indices: 16159112--16159159 Score: 60
Period size: 14 Copynumber: 3.4 Consensus size: 14
16159102 TAAATATTAA
*
16159112 ATTTTTAAGTTTTT
1 ATTTTTAAATTTTT
* *
16159126 ATTTTTTATTTTTT
1 ATTTTTAAATTTTT
*
16159140 ATTTTTAAATTTTA
1 ATTTTTAAATTTTT
16159154 ATTTTT
1 ATTTTT
16159160 TTGAAGATTT
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 29 1.00
ACGTcount: A:0.23, C:0.00, G:0.02, T:0.75
Consensus pattern (14 bp):
ATTTTTAAATTTTT
Found at i:16159137 original size:6 final size:7
Alignment explanation
Indices: 16159121--16159160 Score: 53
Period size: 7 Copynumber: 5.7 Consensus size: 7
16159111 AATTTTTAAG
16159121 TTTTTAT
1 TTTTTAT
16159128 TTTTTAT
1 TTTTTAT
16159135 TTTTTAT
1 TTTTTAT
* *
16159142 TTTTAAA
1 TTTTTAT
*
16159149 TTTTAAT
1 TTTTTAT
16159156 TTTTT
1 TTTTT
16159161 TGAAGATTTT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
7 29 1.00
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (7 bp):
TTTTTAT
Found at i:16160524 original size:41 final size:41
Alignment explanation
Indices: 16160391--16160526 Score: 168
Period size: 41 Copynumber: 3.3 Consensus size: 41
16160381 TTATATGACT
* *
16160391 TTTAGCGGCGTTTTATCAAAAGCGCCGCTAATGCTCTGGCC
1 TTTAGCGGCGTTTTAACAAAAGCGCCGCTAATGCTCTGGTC
* *
16160432 TTTAGCGGCATTTTACCAAAAGCGCCGCTAATGCTCTGGTC
1 TTTAGCGGCGTTTTAACAAAAGCGCCGCTAATGCTCTGGTC
* * * *
16160473 TTTAGC-GCGTTTTAACAAAAAACGCCGCTATTACTCT-GTT
1 TTTAGCGGCGTTTTAAC-AAAAGCGCCGCTAATGCTCTGGTC
*
16160513 TTTAGTGGCGTTTT
1 TTTAGCGGCGTTTT
16160527 TGTTAAAACG
Statistics
Matches: 83, Mismatches: 10, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
40 15 0.18
41 68 0.82
ACGTcount: A:0.21, C:0.24, G:0.21, T:0.34
Consensus pattern (41 bp):
TTTAGCGGCGTTTTAACAAAAGCGCCGCTAATGCTCTGGTC
Found at i:16160586 original size:50 final size:49
Alignment explanation
Indices: 16160523--16160735 Score: 129
Period size: 50 Copynumber: 4.4 Consensus size: 49
16160513 TTTAGTGGCG
* *
16160523 TTTTTGTTAAAACGCTGCTATTGCTCTGTGTTTTACAATTTTTGCGGCAT
1 TTTTTGATAAAACGCCGCTATTGCTCTGTGTTTT-CAATTTTTGCGGCAT
** * * * ** * *
16160573 TTTTTGATAAAACGCCGCTAAAAGCGCCGCTAATGCTCTATTTTTAGCGGCGT
1 TTTTTGATAAAACGCCGCT-ATTGCTCTG-T-GTTTTCAATTTTT-GCGGCAT
*** * * * *
16160626 TTTAACAAAAAACGCCGCTATTACTCTGT-TTTT--A-----GTGGC-G
1 TTTTTGATAAAACGCCGCTATTGCTCTGTGTTTTCAATTTTTGCGGCAT
* *
16160666 TTTTTGTTAAAACGCTGCTATTGCTCTGTGTTTTACAATTTTTGCGGCAT
1 TTTTTGATAAAACGCCGCTATTGCTCTGTGTTTT-CAATTTTTGCGGCAT
16160716 TTTTTGATAAAACGCCGCTA
1 TTTTTGATAAAACGCCGCTA
16160736 AAAACGCCAC
Statistics
Matches: 114, Mismatches: 35, Indels: 28
0.64 0.20 0.16
Matches are distributed among these distances:
40 22 0.19
41 8 0.07
44 1 0.01
47 1 0.01
49 6 0.05
50 35 0.31
51 6 0.05
52 12 0.11
53 23 0.20
ACGTcount: A:0.23, C:0.19, G:0.18, T:0.40
Consensus pattern (49 bp):
TTTTTGATAAAACGCCGCTATTGCTCTGTGTTTTCAATTTTTGCGGCAT
Found at i:16160642 original size:41 final size:41
Alignment explanation
Indices: 16160592--16160669 Score: 111
Period size: 41 Copynumber: 1.9 Consensus size: 41
16160582 AAACGCCGCT
* *
16160592 AAAAGCGCCGCTAATGCTCTATTTTTAGCGGCGTTTTAACA
1 AAAAACGCCGCTAATACTCTATTTTTAGCGGCGTTTTAACA
* * *
16160633 AAAAACGCCGCTATTACTCTGTTTTTAGTGGCGTTTT
1 AAAAACGCCGCTAATACTCTATTTTTAGCGGCGTTTT
16160670 TGTTAAAACG
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
41 32 1.00
ACGTcount: A:0.24, C:0.21, G:0.19, T:0.36
Consensus pattern (41 bp):
AAAAACGCCGCTAATACTCTATTTTTAGCGGCGTTTTAACA
Found at i:16160707 original size:143 final size:143
Alignment explanation
Indices: 16160449--16160748 Score: 548
Period size: 143 Copynumber: 2.1 Consensus size: 143
16160439 GCATTTTACC
*
16160449 AAAAGCGCCGCTAATGCTCTGGTCTTTAGCGCGTTTTAACAAAAAACGCCGCTATTACTCTGTTT
1 AAAAGCGCCGCTAATGCTCTGATCTTTAGCGCGTTTTAACAAAAAACGCCGCTATTACTCTGTTT
16160514 TTAGTGGCGTTTTTGTTAAAACGCTGCTATTGCTCTGTGTTTTACAATTTTTGCGGCATTTTTTG
66 TTAGTGGCGTTTTTGTTAAAACGCTGCTATTGCTCTGTGTTTTACAATTTTTGCGGCATTTTTTG
16160579 ATAAAACGCCGCT
131 ATAAAACGCCGCT
*
16160592 AAAAGCGCCGCTAATGCTCT-ATTTTTAGCGGCGTTTTAACAAAAAACGCCGCTATTACTCTGTT
1 AAAAGCGCCGCTAATGCTCTGATCTTTAGC-GCGTTTTAACAAAAAACGCCGCTATTACTCTGTT
16160656 TTTAGTGGCGTTTTTGTTAAAACGCTGCTATTGCTCTGTGTTTTACAATTTTTGCGGCATTTTTT
65 TTTAGTGGCGTTTTTGTTAAAACGCTGCTATTGCTCTGTGTTTTACAATTTTTGCGGCATTTTTT
16160721 GATAAAACGCCGCT
130 GATAAAACGCCGCT
* *
16160735 AAAAACGCCACTAA
1 AAAAGCGCCGCTAA
16160749 AGCCTTATTT
Statistics
Matches: 152, Mismatches: 4, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
142 7 0.05
143 145 0.95
ACGTcount: A:0.24, C:0.20, G:0.19, T:0.37
Consensus pattern (143 bp):
AAAAGCGCCGCTAATGCTCTGATCTTTAGCGCGTTTTAACAAAAAACGCCGCTATTACTCTGTTT
TTAGTGGCGTTTTTGTTAAAACGCTGCTATTGCTCTGTGTTTTACAATTTTTGCGGCATTTTTTG
ATAAAACGCCGCT
Found at i:16163433 original size:43 final size:43
Alignment explanation
Indices: 16163372--16163526 Score: 256
Period size: 43 Copynumber: 3.6 Consensus size: 43
16163362 CCGGCATTAC
16163372 GCCTGCTAGGCACGAAGGCCCGAATACACATCACTGGCACGAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACTGGCACGAA
* *
16163415 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGTACGAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACTGGCACGAA
* *
16163458 GCCTGCTAGGCATGAAGGCCCGAATACATATCACTGGCACGAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACTGGCACGAA
* *
16163501 GTCTGCTAGGCACGAAGGCCCTAATA
1 GCCTGCTAGGCACGAAGGCCCGAATA
16163527 TAATACCAGC
Statistics
Matches: 103, Mismatches: 9, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
43 103 1.00
ACGTcount: A:0.30, C:0.30, G:0.26, T:0.14
Consensus pattern (43 bp):
GCCTGCTAGGCACGAAGGCCCGAATACACATCACTGGCACGAA
Found at i:16163626 original size:38 final size:38
Alignment explanation
Indices: 16163523--16163613 Score: 130
Period size: 38 Copynumber: 2.4 Consensus size: 38
16163513 CGAAGGCCCT
* * *
16163523 AATATAATACCAGCACTAGGCCTGCGGGATTTAACCCG
1 AATATATTACCAGCACGAAGCCTGCGGGATTTAACCCG
16163561 AATATATTACCAGCACGAAGCCTGCGGGATTTAACCCG
1 AATATATTACCAGCACGAAGCCTGCGGGATTTAACCCG
*
16163599 GATATAATT-CCAGCA
1 AATAT-ATTACCAGCA
16163614 TATAGCTTGC
Statistics
Matches: 48, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
38 45 0.94
39 3 0.06
ACGTcount: A:0.33, C:0.25, G:0.20, T:0.22
Consensus pattern (38 bp):
AATATATTACCAGCACGAAGCCTGCGGGATTTAACCCG
Found at i:16168506 original size:24 final size:23
Alignment explanation
Indices: 16168474--16168535 Score: 79
Period size: 24 Copynumber: 2.6 Consensus size: 23
16168464 AAAATCCAAT
* * *
16168474 GCACTATGTGTGCAGTTTACTATG
1 GCACTATGTGTGCAGTGTAAT-TA
16168498 GCACTATGTGTGCGAGTGTAATTA
1 GCACTATGTGTGC-AGTGTAATTA
16168522 GCACTATGTGTGCA
1 GCACTATGTGTGCA
16168536 AATATGGTTG
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
23 1 0.03
24 27 0.79
25 6 0.18
ACGTcount: A:0.23, C:0.16, G:0.27, T:0.34
Consensus pattern (23 bp):
GCACTATGTGTGCAGTGTAATTA
Found at i:16171601 original size:79 final size:82
Alignment explanation
Indices: 16171490--16171673 Score: 215
Period size: 79 Copynumber: 2.3 Consensus size: 82
16171480 GCTCCTCGTT
* *
16171490 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAAT-TCGCACAAATGCCTTCGGGA-CTTAACC
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGT-ATCTCGCACAAATGCCTTC-GGATCTTAACC
*
16171552 CGGAT-TTAGTAAC-TCGCA
64 CGGATATT-GTAACTTAGCA
* **
16171570 CAAATGCCTTCGGG-CTTAGCCCGGAAT-TAGTATCTCGCACGAATGCCTTCGGATCTTAGTCCG
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTATCTCGCACAAATGCCTTCGGATCTTAACCCG
*
16171633 GATATTGTCACTTAGCA
66 GATATTGTAACTTAGCA
16171650 C-AA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
16171674 CATCATCCAA
Statistics
Matches: 91, Mismatches: 7, Indels: 13
0.82 0.06 0.12
Matches are distributed among these distances:
78 14 0.15
79 55 0.60
80 22 0.24
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.26
Consensus pattern (82 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATATAGTATCTCGCACAAATGCCTTCGGATCTTAACCCG
GATATTGTAACTTAGCA
Found at i:16171607 original size:39 final size:41
Alignment explanation
Indices: 16171490--16171673 Score: 190
Period size: 40 Copynumber: 4.6 Consensus size: 41
16171480 GCTCCTCGTT
* *
16171490 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAAT-TCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGTAATCTCGCA
* *
16171530 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAA-CTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAATCTCGCA
16171570 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGT-ATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAATCTCGCA
* * * *
16171609 CGAATGCCTTC-GGATCTTAGTCCGGATATT-GTCA-CTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGA-ATTAGTAATC-TCGCA
16171650 C-AA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
16171674 CATCATCCAA
Statistics
Matches: 127, Mismatches: 8, Indels: 19
0.82 0.05 0.12
Matches are distributed among these distances:
38 3 0.02
39 47 0.37
40 66 0.52
41 11 0.09
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.26
Consensus pattern (41 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAATCTCGCA
Found at i:16196459 original size:20 final size:20
Alignment explanation
Indices: 16196422--16196471 Score: 66
Period size: 20 Copynumber: 2.5 Consensus size: 20
16196412 CATATCATGC
16196422 ATTCATTTGT-GATCTCATAT
1 ATTCATTT-TCGATCTCATAT
*
16196442 ATTCATTTTCGATTTCATAT
1 ATTCATTTTCGATCTCATAT
*
16196462 ATTCGTTTTC
1 ATTCATTTTC
16196472 AAACTGATAA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
19 1 0.04
20 26 0.96
ACGTcount: A:0.22, C:0.16, G:0.08, T:0.54
Consensus pattern (20 bp):
ATTCATTTTCGATCTCATAT
Found at i:16198588 original size:27 final size:27
Alignment explanation
Indices: 16198425--16198587 Score: 206
Period size: 27 Copynumber: 6.0 Consensus size: 27
16198415 AATAATGATC
*
16198425 GAAATACCCCTATAAGGTAAAATGACC
1 GAAATACCCCTATAAGGTAAAATGACT
16198452 GAAATACCCCTATAAGGTAAAATGACT
1 GAAATACCCCTATAAGGTAAAATGACT
*
16198479 GAAATACCCCCAT-AGAGTAAAATGACT
1 GAAATACCCCTATAAG-GTAAAATGACT
* * *
16198506 GAAGTACACCC-ATAGGGTAAAATGACC
1 GAAATAC-CCCTATAAGGTAAAATGACT
*
16198533 GAAATACACCC-ATAGGGTAAAATGACT
1 GAAATAC-CCCTATAAGGTAAAATGACT
* *
16198560 GTAATACCCCTGTAAGGTAAAATGACT
1 GAAATACCCCTATAAGGTAAAATGACT
16198587 G
1 G
16198588 TTTTACCCTT
Statistics
Matches: 122, Mismatches: 10, Indels: 8
0.87 0.07 0.06
Matches are distributed among these distances:
26 5 0.04
27 113 0.93
28 4 0.03
ACGTcount: A:0.42, C:0.20, G:0.18, T:0.20
Consensus pattern (27 bp):
GAAATACCCCTATAAGGTAAAATGACT
Found at i:16198607 original size:27 final size:27
Alignment explanation
Indices: 16198575--16198786 Score: 160
Period size: 27 Copynumber: 7.8 Consensus size: 27
16198565 ACCCCTGTAA
*
16198575 GGTAAAATGACTGTTTTACCCTTATGT
1 GGTAAAATGACTGTTTTGCCCTTATGT
* * * *
16198602 GTTAAAATAAC-GATTTTGCCCATATGC
1 GGTAAAATGACTG-TTTTGCCCTTATGT
* ** * **
16198629 GATAAAATGACAATTTTTCCCCCATGT
1 GGTAAAATGACTGTTTTGCCCTTATGT
*
16198656 GGCAAAATGACTGTTTTGCCCTTATGT
1 GGTAAAATGACTGTTTTGCCCTTATGT
* *
16198683 GTTAAAATGA-TGGTTTTTCCCTTATGT
1 GGTAAAATGACT-GTTTTGCCCTTATGT
** * * *
16198710 GAAAAAATGA-TGATTTGGCCCATATGA
1 GGTAAAATGACTG-TTTTGCCCTTATGT
* *
16198737 GGTAAAATGAGTATTTTGCCCTTATGT
1 GGTAAAATGACTGTTTTGCCCTTATGT
**
16198764 GGTAGGATGACTGTTTTGTCCCT
1 GGTAAAATGACTGTTTTG-CCCT
16198787 ACGTGATGTA
Statistics
Matches: 141, Mismatches: 38, Indels: 11
0.74 0.20 0.06
Matches are distributed among these distances:
26 3 0.02
27 133 0.94
28 5 0.04
ACGTcount: A:0.27, C:0.16, G:0.20, T:0.37
Consensus pattern (27 bp):
GGTAAAATGACTGTTTTGCCCTTATGT
Found at i:16198717 original size:81 final size:81
Alignment explanation
Indices: 16198578--16198764 Score: 212
Period size: 81 Copynumber: 2.3 Consensus size: 81
16198568 CCTGTAAGGT
* *
16198578 AAAATGACTGTTTTACCCTTATGTGTTAAAATAACGATTTTGCCCATATGCGATAAAATGACAAT
1 AAAATGACTGTTTTGCCCTTATGTGTTAAAATAACGATTTTGCCCATATGCGAAAAAATGACAAT
** * *
16198643 TTTTCCCCCATGTGGC
66 TTGGCCCACATGAGGC
* * * * * * **
16198659 AAAATGACTGTTTTGCCCTTATGTGTTAAAATGATGGTTTTTCCCTTATGTGAAAAAATGATGAT
1 AAAATGACTGTTTTGCCCTTATGTGTTAAAATAACGATTTTGCCCATATGCGAAAAAATGACAAT
* *
16198724 TTGGCCCATATGAGGT
66 TTGGCCCACATGAGGC
* *
16198740 AAAATGAGTATTTTGCCCTTATGTG
1 AAAATGACTGTTTTGCCCTTATGTG
16198765 GTAGGATGAC
Statistics
Matches: 88, Mismatches: 18, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
81 88 1.00
ACGTcount: A:0.29, C:0.16, G:0.18, T:0.37
Consensus pattern (81 bp):
AAAATGACTGTTTTGCCCTTATGTGTTAAAATAACGATTTTGCCCATATGCGAAAAAATGACAAT
TTGGCCCACATGAGGC
Found at i:16201010 original size:29 final size:29
Alignment explanation
Indices: 16200965--16201083 Score: 136
Period size: 29 Copynumber: 4.2 Consensus size: 29
16200955 GTGAGCATGA
16200965 ATAT-AATAT-AATTTGGGCCTAATGGGCC
1 ATATGAATATGAA-TTGGGCCTAATGGGCC
* * *
16200993 ATATCAATGTGAATTGGGCCTAGTGGGCC
1 ATATGAATATGAATTGGGCCTAATGGGCC
* * *
16201022 ATAAGAATATGAACTGGGCCAAATGGGCC
1 ATATGAATATGAATTGGGCCTAATGGGCC
* *
16201051 ATTTGAATAAG-ATTGGGCCTAATGGGCC
1 ATATGAATATGAATTGGGCCTAATGGGCC
16201079 ATATG
1 ATATG
16201084 CATGAATGTA
Statistics
Matches: 75, Mismatches: 14, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
28 23 0.31
29 50 0.67
30 2 0.03
ACGTcount: A:0.31, C:0.15, G:0.27, T:0.27
Consensus pattern (29 bp):
ATATGAATATGAATTGGGCCTAATGGGCC
Found at i:16208748 original size:42 final size:42
Alignment explanation
Indices: 16208674--16208759 Score: 102
Period size: 42 Copynumber: 2.0 Consensus size: 42
16208664 ATTTTCTCGA
* * *
16208674 AGATTAATTTGCGTTCGAGATATATCCTATTGAGGGTAAAGG
1 AGATTAATTTACGTTCGAGATATATCCAATTGAGAGTAAAGG
* * *
16208716 AGATTGATTTACGTTCGGGATATCA-CCAATTGAGAGTGAAGG
1 AGATTAATTTACGTTCGAGATAT-ATCCAATTGAGAGTAAAGG
16208758 AG
1 AG
16208760 GCGGATGTAC
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
42 36 0.97
43 1 0.03
ACGTcount: A:0.31, C:0.10, G:0.28, T:0.30
Consensus pattern (42 bp):
AGATTAATTTACGTTCGAGATATATCCAATTGAGAGTAAAGG
Found at i:16211265 original size:16 final size:16
Alignment explanation
Indices: 16211244--16211275 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
16211234 TTGTAACGCC
16211244 CCAAAAATCCCGAAAT
1 CCAAAAATCCCGAAAT
*
16211260 CCAAAAATCCTGAAAT
1 CCAAAAATCCCGAAAT
16211276 TTTAATTTTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.50, C:0.28, G:0.06, T:0.16
Consensus pattern (16 bp):
CCAAAAATCCCGAAAT
Found at i:16213239 original size:40 final size:40
Alignment explanation
Indices: 16213160--16213327 Score: 207
Period size: 40 Copynumber: 4.2 Consensus size: 40
16213150 CGGATGATAA
* * * *
16213160 CCGGACTAAGATCCGAAGGCATTCGTGCGAGTTG-CTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAG-TGATTATAT
* * * *
16213200 CCGGGCTATGTCCCGAAGGCATTTATGCTAGTGATTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGATTATAT
* *
16213240 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGATTATAT
16213280 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-TTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAG-TGATTATAT
16213320 CC-GGCTAA
1 CCGGGCTAA
16213328 ATCCTGAAGA
Statistics
Matches: 110, Mismatches: 16, Indels: 5
0.84 0.12 0.04
Matches are distributed among these distances:
39 8 0.07
40 101 0.92
41 1 0.01
ACGTcount: A:0.24, C:0.22, G:0.27, T:0.27
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGATTATAT
Found at i:16213298 original size:80 final size:80
Alignment explanation
Indices: 16213160--16213327 Score: 241
Period size: 80 Copynumber: 2.1 Consensus size: 80
16213150 CGGATGATAA
* * * * *
16213160 CCGGACTAAGATCCGAAGGCATTCGTGCGAGTTGCTATATCCGGGCTATGTCCCGAAGGCATTTA
1 CCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTACTATATCCGGGCTAAGACCCGAAGGCATTTA
*
16213225 TGCTAG-TGATTATAT
66 TGCGAGTTG-TTATAT
* *
16213240 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGACCCGAAGGCATTTG
1 CCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTACTATATCCGGGCTAAGACCCGAAGGCATTTA
16213305 TGCGAGTTGTTATAT
66 TGCGAGTTGTTATAT
16213320 CC-GGCTAA
1 CCGGGCTAA
16213328 ATCCTGAAGA
Statistics
Matches: 79, Mismatches: 8, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
79 6 0.08
80 71 0.90
81 2 0.03
ACGTcount: A:0.24, C:0.22, G:0.27, T:0.27
Consensus pattern (80 bp):
CCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTACTATATCCGGGCTAAGACCCGAAGGCATTTA
TGCGAGTTGTTATAT
Found at i:16213604 original size:22 final size:22
Alignment explanation
Indices: 16213564--16213605 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
16213554 GAATGTGCAT
*
16213564 ATATGAAGTTATTCATTTAGCC
1 ATATGAAGTTATACATTTAGCC
16213586 ATATGAATGTTATAC-TTTAG
1 ATATGAA-GTTATACATTTAG
16213606 TCAAAACTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 12 0.67
23 6 0.33
ACGTcount: A:0.33, C:0.10, G:0.14, T:0.43
Consensus pattern (22 bp):
ATATGAAGTTATACATTTAGCC
Found at i:16215361 original size:17 final size:15
Alignment explanation
Indices: 16215335--16215384 Score: 55
Period size: 16 Copynumber: 3.2 Consensus size: 15
16215325 CACGCACAAT
16215335 AAATCAGAAAAAGCTG
1 AAATCAG-AAAAGCTG
16215351 AAATACAGAAAAGCTG
1 AAAT-CAGAAAAGCTG
* * *
16215367 AAAGCCGAACAGCTG
1 AAATCAGAAAAGCTG
16215382 AAA
1 AAA
16215385 GTTGGGCTAC
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
15 12 0.40
16 15 0.50
17 3 0.10
ACGTcount: A:0.54, C:0.16, G:0.20, T:0.10
Consensus pattern (15 bp):
AAATCAGAAAAGCTG
Found at i:16215641 original size:29 final size:29
Alignment explanation
Indices: 16215609--16215711 Score: 104
Period size: 29 Copynumber: 3.6 Consensus size: 29
16215599 AATATGATTT
16215609 GGCCTAATGGGCCATATGAATGTGAATTG
1 GGCCTAATGGGCCATATGAATGTGAATTG
* * *
16215638 GGCCTAGTGGGCCATAAGAATATGAATTG
1 GGCCTAATGGGCCATATGAATGTGAATTG
* * *
16215667 GGTC-AGATGGGCCATTTG-A-GTAATATTG
1 GGCCTA-ATGGGCCATATGAATGTGA-ATTG
*
16215695 GGCCTAGTGGGCCATAT
1 GGCCTAATGGGCCATAT
16215712 TTATGTTTGT
Statistics
Matches: 59, Mismatches: 12, Indels: 7
0.76 0.15 0.09
Matches are distributed among these distances:
27 2 0.03
28 18 0.31
29 39 0.66
ACGTcount: A:0.26, C:0.15, G:0.32, T:0.27
Consensus pattern (29 bp):
GGCCTAATGGGCCATATGAATGTGAATTG
Found at i:16215661 original size:57 final size:57
Alignment explanation
Indices: 16215599--16215710 Score: 140
Period size: 57 Copynumber: 2.0 Consensus size: 57
16215589 GCATGAATAT
* *
16215599 AATATGATTTGGC-CTA-ATGGGCCATATGAATGTGA-ATTGGGCCTAGTGGGCCATAAG
1 AATATGAATTGGCTC-AGATGGGCCATATG-A-GTAATATTGGGCCTAGTGGGCCATAAG
* *
16215656 AATATGAATTGGGTCAGATGGGCCATTTGAGTAATATTGGGCCTAGTGGGCCATA
1 AATATGAATTGGCTCAGATGGGCCATATGAGTAATATTGGGCCTAGTGGGCCATA
16215711 TTTATGTTTG
Statistics
Matches: 48, Mismatches: 4, Indels: 6
0.83 0.07 0.10
Matches are distributed among these distances:
56 3 0.06
57 33 0.69
58 12 0.25
ACGTcount: A:0.28, C:0.13, G:0.30, T:0.29
Consensus pattern (57 bp):
AATATGAATTGGCTCAGATGGGCCATATGAGTAATATTGGGCCTAGTGGGCCATAAG
Found at i:16219272 original size:27 final size:27
Alignment explanation
Indices: 16219234--16219374 Score: 113
Period size: 27 Copynumber: 5.2 Consensus size: 27
16219224 GAGATGAAAT
16219234 AATGACCGAAATACCCCCATAGGATAA
1 AATGACCGAAATACCCCCATAGGATAA
* * *
16219261 AATGACCAAAATATCCCCATAGGGTAA
1 AATGACCGAAATACCCCCATAGGATAA
* * ** *
16219288 AATGATCGAAATTCCCTTATAGAATAA
1 AATGACCGAAATACCCCCATAGGATAA
* ** * *
16219315 AATAACCCTAATACCCCTATAGGGTAA
1 AATGACCGAAATACCCCCATAGGATAA
* * **
16219342 AATGACTGTAATACCCTTATAAGG-TAA
1 AATGACCGAAATACCCCCAT-AGGATAA
16219369 AATGAC
1 AATGAC
16219375 TGTTTTGCCT
Statistics
Matches: 90, Mismatches: 23, Indels: 2
0.78 0.20 0.02
Matches are distributed among these distances:
27 87 0.97
28 3 0.03
ACGTcount: A:0.43, C:0.21, G:0.13, T:0.23
Consensus pattern (27 bp):
AATGACCGAAATACCCCCATAGGATAA
Found at i:16219359 original size:54 final size:54
Alignment explanation
Indices: 16219234--16219362 Score: 145
Period size: 54 Copynumber: 2.4 Consensus size: 54
16219224 GAGATGAAAT
* ** * *
16219234 AATGACCGAAATACCCCCATAGGATAAAATGACCAAAATATCCCCATAGGGTAA
1 AATGACTGAAATACCCTTATAGAATAAAATAACCAAAATATCCCCATAGGGTAA
* **
16219288 AATGA-TCGAAATTCCCTTATAGAATAAAATAACCCTAATA-CCCCTATAGGGTAA
1 AATGACT-GAAATACCCTTATAGAATAAAATAACCAAAATATCCCC-ATAGGGTAA
*
16219342 AATGACTGTAATACCCTTATA
1 AATGACTGAAATACCCTTATA
16219363 AGGTAAAATG
Statistics
Matches: 62, Mismatches: 10, Indels: 6
0.79 0.13 0.08
Matches are distributed among these distances:
53 4 0.06
54 57 0.92
55 1 0.02
ACGTcount: A:0.43, C:0.22, G:0.12, T:0.23
Consensus pattern (54 bp):
AATGACTGAAATACCCTTATAGAATAAAATAACCAAAATATCCCCATAGGGTAA
Found at i:16219388 original size:27 final size:27
Alignment explanation
Indices: 16219337--16219606 Score: 244
Period size: 27 Copynumber: 10.0 Consensus size: 27
16219327 ACCCCTATAG
** * **
16219337 GGTAAAATGACTGTAATACCCTTATAA
1 GGTAAAATGACTGTTTTGCCCTTATGT
*
16219364 GGTAAAATGACTGTTTTGCCTTTATGT
1 GGTAAAATGACTGTTTTGCCCTTATGT
*
16219391 GTTAAAATGAC-GATTTTGCCCTTATGT
1 GGTAAAATGACTG-TTTTGCCCTTATGT
* * *
16219418 GATAAAATAACGGTTTTGCCCTTATGT
1 GGTAAAATGACTGTTTTGCCCTTATGT
* * *
16219445 GTTAAAACGAC-GATTTTCCCCTTATGT
1 GGTAAAATGACTG-TTTTGCCCTTATGT
* * *
16219472 GATAAAATCA-TGGTTTT-CCTTTATGT
1 GGTAAAATGACT-GTTTTGCCCTTATGT
*
16219498 GGAAAAATGACTGATTTT-CCCTTATGT
1 GGTAAAATGACTG-TTTTGCCCTTATGT
* * *
16219525 GTTAAAATGACGGTTTTGCCCTTATGA
1 GGTAAAATGACTGTTTTGCCCTTATGT
*
16219552 GGTAAAATGACTATTTTGCCCTTATGT
1 GGTAAAATGACTGTTTTGCCCTTATGT
** * *
16219579 GGTAGGATGATTGTTTTGCCCGTATGT
1 GGTAAAATGACTGTTTTGCCCTTATGT
16219606 G
1 G
16219607 ATGTATGTTT
Statistics
Matches: 200, Mismatches: 35, Indels: 16
0.80 0.14 0.06
Matches are distributed among these distances:
26 22 0.11
27 176 0.88
28 2 0.01
ACGTcount: A:0.27, C:0.14, G:0.20, T:0.39
Consensus pattern (27 bp):
GGTAAAATGACTGTTTTGCCCTTATGT
Found at i:16219563 original size:54 final size:54
Alignment explanation
Indices: 16219366--16219606 Score: 279
Period size: 54 Copynumber: 4.5 Consensus size: 54
16219356 CCTTATAAGG
* * *
16219366 TAAAATGACTGTTTTGCCTTTATGTGTTAAAATGACGATTTTGCCCTTATGTGA
1 TAAAATGACGGTTTTGCCCTTATGTGGTAAAATGACGATTTTGCCCTTATGTGA
* * * *
16219420 TAAAATAACGGTTTTGCCCTTATGTGTTAAAACGACGATTTTCCCCTTATGTGA
1 TAAAATGACGGTTTTGCCCTTATGTGGTAAAATGACGATTTTGCCCTTATGTGA
* * * * *
16219474 TAAAATCATGGTTTT-CCTTTATGTGGAAAAATGACTGATTTT-CCCTTATGTGT
1 TAAAATGACGGTTTTGCCCTTATGTGGTAAAATGAC-GATTTTGCCCTTATGTGA
* * *
16219527 TAAAATGACGGTTTTGCCCTTATGAGGTAAAATGACTATTTTGCCCTTATGTGG
1 TAAAATGACGGTTTTGCCCTTATGTGGTAAAATGACGATTTTGCCCTTATGTGA
** ** *
16219581 TAGGATGATTGTTTTGCCCGTATGTG
1 TAAAATGACGGTTTTGCCCTTATGTG
16219607 ATGTATGTTT
Statistics
Matches: 159, Mismatches: 25, Indels: 6
0.84 0.13 0.03
Matches are distributed among these distances:
53 44 0.28
54 115 0.72
ACGTcount: A:0.25, C:0.15, G:0.20, T:0.40
Consensus pattern (54 bp):
TAAAATGACGGTTTTGCCCTTATGTGGTAAAATGACGATTTTGCCCTTATGTGA
Found at i:16219595 original size:107 final size:108
Alignment explanation
Indices: 16219366--16219598 Score: 308
Period size: 107 Copynumber: 2.2 Consensus size: 108
16219356 CCTTATAAGG
* **
16219366 TAAAATGACTGTTTTGCCTTTATGTGTTAAAATGACGATTTTGCCCTTATGTGATAAAATAACGG
1 TAAAATGATTGTTTTGCCTTTATGTGGAAAAATGACGATTTTGCCCTTATGTGATAAAATAACGG
* *
16219431 TTTTGCCCTTATGTGTTAAAACGACGATTTTCCCCTTATGTGA
66 TTTTGCCCTTATGAGGTAAAACGACGATTTTCCCCTTATGTGA
* * * *
16219474 TAAAATCATGGTTTT-CCTTTATGTGGAAAAATGACTGATTTT-CCCTTATGTGTTAAAATGACG
1 TAAAATGATTGTTTTGCCTTTATGTGGAAAAATGAC-GATTTTGCCCTTATGTGATAAAATAACG
* * * *
16219537 GTTTTGCCCTTATGAGGTAAAATGACTATTTTGCCCTTATGTGG
65 GTTTTGCCCTTATGAGGTAAAACGACGATTTTCCCCTTATGTGA
**
16219581 TAGGATGATTGTTTTGCC
1 TAAAATGATTGTTTTGCC
16219599 CGTATGTGAT
Statistics
Matches: 106, Mismatches: 17, Indels: 4
0.83 0.13 0.03
Matches are distributed among these distances:
107 86 0.81
108 20 0.19
ACGTcount: A:0.26, C:0.15, G:0.19, T:0.40
Consensus pattern (108 bp):
TAAAATGATTGTTTTGCCTTTATGTGGAAAAATGACGATTTTGCCCTTATGTGATAAAATAACGG
TTTTGCCCTTATGAGGTAAAACGACGATTTTCCCCTTATGTGA
Found at i:16219962 original size:18 final size:18
Alignment explanation
Indices: 16219936--16219984 Score: 80
Period size: 18 Copynumber: 2.7 Consensus size: 18
16219926 GTATACAGCA
*
16219936 TACTCTTACTGCACTGAT
1 TACTGTTACTGCACTGAT
*
16219954 TACTGTTACTGCACTGTT
1 TACTGTTACTGCACTGAT
16219972 TACTGTTACTGCA
1 TACTGTTACTGCA
16219985 ATTGGCCAAG
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 29 1.00
ACGTcount: A:0.20, C:0.24, G:0.14, T:0.41
Consensus pattern (18 bp):
TACTGTTACTGCACTGAT
Found at i:16227492 original size:18 final size:19
Alignment explanation
Indices: 16227464--16227499 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
16227454 ATACCAATAC
16227464 CATATTAACATCTATCATA
1 CATATTAACATCTATCATA
*
16227483 CATA-TAACATTTATCAT
1 CATATTAACATCTATCAT
16227500 GCCATAAATC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 12 0.75
19 4 0.25
ACGTcount: A:0.42, C:0.19, G:0.00, T:0.39
Consensus pattern (19 bp):
CATATTAACATCTATCATA
Found at i:16227505 original size:19 final size:19
Alignment explanation
Indices: 16227463--16227505 Score: 52
Period size: 18 Copynumber: 2.3 Consensus size: 19
16227453 CATACCAATA
16227463 CCATATTAACATCTATCAT
1 CCATATTAACATCTATCAT
* *
16227482 ACATA-TAACATTTATCAT
1 CCATATTAACATCTATCAT
16227500 GCCATA
1 -CCATA
16227506 AATCATTCAT
Statistics
Matches: 20, Mismatches: 3, Indels: 2
0.80 0.12 0.08
Matches are distributed among these distances:
18 12 0.60
19 8 0.40
ACGTcount: A:0.40, C:0.23, G:0.02, T:0.35
Consensus pattern (19 bp):
CCATATTAACATCTATCAT
Found at i:16228781 original size:42 final size:42
Alignment explanation
Indices: 16228660--16228781 Score: 149
Period size: 43 Copynumber: 2.9 Consensus size: 42
16228650 TATCGTACCA
*
16228660 ATGCCATATCCCAGATATGGTCTTACATGTAATGTCATATTG
1 ATGCCATATCCCAGATATGGTCTTACATGTAATCTCATATTG
* * *
16228702 AAGCCAATAACCCAGCTATGGTCTTAC--GCTAAGTCTCATATTG
1 ATGCC-ATATCCCAGATATGGTCTTACATG-TAA-TCTCATATTG
**
16228745 ATGCCATATCTTAGATATGGTCTTACATGTAATCTCA
1 ATGCCATATCCCAGATATGGTCTTACATGTAATCTCA
16228782 GTAACCCTAA
Statistics
Matches: 66, Mismatches: 9, Indels: 10
0.78 0.11 0.12
Matches are distributed among these distances:
41 1 0.02
42 29 0.44
43 35 0.53
44 1 0.02
ACGTcount: A:0.30, C:0.21, G:0.16, T:0.34
Consensus pattern (42 bp):
ATGCCATATCCCAGATATGGTCTTACATGTAATCTCATATTG
Found at i:16231426 original size:16 final size:16
Alignment explanation
Indices: 16231400--16231450 Score: 57
Period size: 16 Copynumber: 3.2 Consensus size: 16
16231390 GTAGATCGGC
*
16231400 AAATCCCGAAAAGCCA
1 AAATGCCGAAAAGCCA
* **
16231416 AAATGCTGAAAAGCTG
1 AAATGCCGAAAAGCCA
*
16231432 AAATGCCGGAAAGCCA
1 AAATGCCGAAAAGCCA
16231448 AAA
1 AAA
16231451 GTTTGGCTAC
Statistics
Matches: 27, Mismatches: 8, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
16 27 1.00
ACGTcount: A:0.49, C:0.22, G:0.20, T:0.10
Consensus pattern (16 bp):
AAATGCCGAAAAGCCA
Found at i:16231743 original size:28 final size:28
Alignment explanation
Indices: 16231672--16231748 Score: 79
Period size: 28 Copynumber: 2.8 Consensus size: 28
16231662 CTGTAAAAGT
*
16231672 GATTGGGCCTAGT-GGTCCATATAGATGT
1 GATTGGGCCTAGTGGGT-CATATAGATGA
*
16231700 GATTTGGGCC-AATGGGTCATAT-GAATGA
1 GA-TTGGGCCTAGTGGGTCATATAG-ATGA
*
16231728 GATTGGGCCTAGTGGGCCATA
1 GATTGGGCCTAGTGGGTCATA
16231749 AGCATGTATG
Statistics
Matches: 41, Mismatches: 4, Indels: 8
0.77 0.08 0.15
Matches are distributed among these distances:
27 8 0.20
28 23 0.56
29 10 0.24
ACGTcount: A:0.23, C:0.14, G:0.34, T:0.29
Consensus pattern (28 bp):
GATTGGGCCTAGTGGGTCATATAGATGA
Found at i:16235775 original size:28 final size:30
Alignment explanation
Indices: 16235701--16235778 Score: 90
Period size: 28 Copynumber: 2.7 Consensus size: 30
16235691 CTGTAAAAGT
* *
16235701 GATTGGGTCTAGTGGGCCATATAGAGGTGA
1 GATTGGGCCTAGTGGGCCATATAGAGATGA
* * *
16235731 -TTTGGGCCTAATTGGCCATAT-GA-ATGA
1 GATTGGGCCTAGTGGGCCATATAGAGATGA
16235758 GATTGGGCCTAGTGGGCCATA
1 GATTGGGCCTAGTGGGCCATA
16235779 AGCATGTATG
Statistics
Matches: 39, Mismatches: 8, Indels: 4
0.76 0.16 0.08
Matches are distributed among these distances:
27 3 0.08
28 19 0.49
29 17 0.44
ACGTcount: A:0.23, C:0.14, G:0.35, T:0.28
Consensus pattern (30 bp):
GATTGGGCCTAGTGGGCCATATAGAGATGA
Found at i:16236691 original size:2 final size:2
Alignment explanation
Indices: 16236684--16236983 Score: 256
Period size: 2 Copynumber: 150.0 Consensus size: 2
16236674 GCCAACTAGC
* * *
16236684 AT AT AT AT AT AT GAT AT AG AT A- AT AT AT AT AT AT AG AT CT AT
1 AT AT AT AT AT AT -AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
* *
16236726 AT AT CT AT AT AT AT AT -T AT CT AT AT AT AT AT AT GAT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT -AT AT AT AT
* *
16236768 CAT AT CT AT AT AT AT AT -T AT CT AT AT CAT AT AT AT AT AT AT A-
1 -AT AT AT AT AT AT AT AT AT AT AT AT AT -AT AT AT AT AT AT AT AT
* * * *
16236810 AT AT TT AT AG AT AT AT CT AT AT AT AT AT CT AT CAT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT -AT AT AT AT AT
* * * * *
16236853 CT -T AT CT AT AT CT AT AT AT AT AT AG AT A- AT AT AT AG AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
* *
16236893 AT AG AT AT GAT AT AT AT GAT AT AT AT AT AG AT A- AT AT AT AT AT
1 AT AT AT AT -AT AT AT AT -AT AT AT AT AT AT AT AT AT AT AT AT AT
* * * * * *
16236936 AG AT AT AT AG AT CT CT CT AT AT AT AT AT -T AT CT AT AT CAT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT -AT AT
16236978 AT AT AT
1 AT AT AT
16236984 CTTTATGTAA
Statistics
Matches: 239, Mismatches: 43, Indels: 32
0.76 0.14 0.10
Matches are distributed among these distances:
1 8 0.03
2 215 0.90
3 16 0.07
ACGTcount: A:0.44, C:0.06, G:0.04, T:0.46
Consensus pattern (2 bp):
AT
Found at i:16236960 original size:26 final size:24
Alignment explanation
Indices: 16236881--16236947 Score: 91
Period size: 23 Copynumber: 2.8 Consensus size: 24
16236871 TATATAGATA
*
16236881 ATATATAGATATATAGATATGATAT
1 ATATATAGATATATAGAT-TAATAT
*
16236906 ATATGATATATATATAGA-TAATAT
1 ATAT-ATAGATATATAGATTAATAT
16236930 ATATATAGATATATAGAT
1 ATATATAGATATATAGAT
16236948 CTCTCTATAT
Statistics
Matches: 37, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
23 12 0.32
24 9 0.24
25 4 0.11
26 12 0.32
ACGTcount: A:0.49, C:0.00, G:0.10, T:0.40
Consensus pattern (24 bp):
ATATATAGATATATAGATTAATAT
Found at i:16239027 original size:19 final size:21
Alignment explanation
Indices: 16239005--16239047 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
16238995 TTCCAAATAT
16239005 ATATACA-TA-AAACAAAACA
1 ATATACAGTAGAAACAAAACA
* *
16239024 ATATCCAGTAGAAACAAAAGA
1 ATATACAGTAGAAACAAAACA
16239045 ATA
1 ATA
16239048 GCCTCACATA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
19 6 0.30
20 2 0.10
21 12 0.60
ACGTcount: A:0.63, C:0.14, G:0.07, T:0.16
Consensus pattern (21 bp):
ATATACAGTAGAAACAAAACA
Found at i:16240863 original size:20 final size:20
Alignment explanation
Indices: 16240838--16240890 Score: 81
Period size: 20 Copynumber: 2.7 Consensus size: 20
16240828 TTTAAGGGCC
16240838 ACACGCCCGTGTGGCATGGG
1 ACACGCCCGTGTGGCATGGG
*
16240858 ACACGCCCGTGTGGCTTGGG
1 ACACGCCCGTGTGGCATGGG
*
16240878 ACAC-ACCGTGTGG
1 ACACGCCCGTGTGG
16240891 GTAGGCCGTG
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
19 8 0.26
20 23 0.74
ACGTcount: A:0.15, C:0.30, G:0.38, T:0.17
Consensus pattern (20 bp):
ACACGCCCGTGTGGCATGGG
Found at i:16241341 original size:18 final size:19
Alignment explanation
Indices: 16241313--16241348 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
16241303 ATACCAATAC
16241313 CATATTAACATCTATCATA
1 CATATTAACATCTATCATA
*
16241332 CATA-TAACATTTATCAT
1 CATATTAACATCTATCAT
16241349 GCCATAAATC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 12 0.75
19 4 0.25
ACGTcount: A:0.42, C:0.19, G:0.00, T:0.39
Consensus pattern (19 bp):
CATATTAACATCTATCATA
Found at i:16241354 original size:19 final size:19
Alignment explanation
Indices: 16241312--16241354 Score: 52
Period size: 18 Copynumber: 2.3 Consensus size: 19
16241302 CATACCAATA
16241312 CCATATTAACATCTATCAT
1 CCATATTAACATCTATCAT
* *
16241331 ACATA-TAACATTTATCAT
1 CCATATTAACATCTATCAT
16241349 GCCATA
1 -CCATA
16241355 AATCATTCAT
Statistics
Matches: 20, Mismatches: 3, Indels: 2
0.80 0.12 0.08
Matches are distributed among these distances:
18 12 0.60
19 8 0.40
ACGTcount: A:0.40, C:0.23, G:0.02, T:0.35
Consensus pattern (19 bp):
CCATATTAACATCTATCAT
Found at i:16245127 original size:49 final size:49
Alignment explanation
Indices: 16245072--16245198 Score: 200
Period size: 49 Copynumber: 2.6 Consensus size: 49
16245062 AACCAACCAA
* *
16245072 GAACACACATAGGCACCAAGTGCCTAGCCAGTAAGCTAACATCCCTCCG
1 GAACACACCTAGACACCAAGTGCCTAGCCAGTAAGCTAACATCCCTCCG
* * *
16245121 GAACACACCTAGACACTAAGTGCTTAGCCAGTAAGCTAGCATCCCTCCG
1 GAACACACCTAGACACCAAGTGCCTAGCCAGTAAGCTAACATCCCTCCG
*
16245170 GAACACACCTAGACACCAAGTGCCAAGCC
1 GAACACACCTAGACACCAAGTGCCTAGCC
16245199 CGAAGACTTT
Statistics
Matches: 70, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
49 70 1.00
ACGTcount: A:0.33, C:0.35, G:0.18, T:0.14
Consensus pattern (49 bp):
GAACACACCTAGACACCAAGTGCCTAGCCAGTAAGCTAACATCCCTCCG
Found at i:16252586 original size:37 final size:37
Alignment explanation
Indices: 16252536--16252614 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
16252526 TTATTACGAA
* * *
16252536 GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
*
16252573 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
16252610 GTCTT
1 GTCTT
16252615 TAGAGCTCGG
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.25, C:0.32, G:0.19, T:0.24
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
Found at i:16252811 original size:47 final size:47
Alignment explanation
Indices: 16252733--16253143 Score: 750
Period size: 47 Copynumber: 8.7 Consensus size: 47
16252723 CCCTTCGGGA
* * * * * *
16252733 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
16252780 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
16252827 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
16252874 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
16252921 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
16252968 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
16253015 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
16253062 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
16253109 CTTATCACATATATACACTTTCACATTCATCACAT
1 CTTATCACATATATACACTTTCACATTCATCACAT
16253144 AGAATCCTAA
Statistics
Matches: 354, Mismatches: 10, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
47 354 1.00
ACGTcount: A:0.29, C:0.30, G:0.08, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:16254305 original size:18 final size:18
Alignment explanation
Indices: 16254282--16254323 Score: 84
Period size: 18 Copynumber: 2.3 Consensus size: 18
16254272 CATATGCATT
16254282 TTTAATCACATCAAGCAA
1 TTTAATCACATCAAGCAA
16254300 TTTAATCACATCAAGCAA
1 TTTAATCACATCAAGCAA
16254318 TTTAAT
1 TTTAAT
16254324 ACAATTCATT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.43, C:0.19, G:0.05, T:0.33
Consensus pattern (18 bp):
TTTAATCACATCAAGCAA
Found at i:16262766 original size:65 final size:65
Alignment explanation
Indices: 16262641--16262769 Score: 213
Period size: 65 Copynumber: 2.0 Consensus size: 65
16262631 TTATCTTTCT
* *
16262641 TTCGAGTCTCAGATCTATACAACGCACTACAGACTGCATCAAATGTGATTGAATCTTTCCCATGG
1 TTCGAGTCTCAGATCTATACAACGCACTACAGACTGCATCAAATGTGATCGAATCCTTCCCATGG
* **
16262706 TTCGAGTCTCAGATCTATACAACGCACTACAGATTGCATCAAATGTGATCGTGTCCTTCCCATG
1 TTCGAGTCTCAGATCTATACAACGCACTACAGACTGCATCAAATGTGATCGAATCCTTCCCATG
16262770 AAGCAATGTG
Statistics
Matches: 59, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
65 59 1.00
ACGTcount: A:0.28, C:0.26, G:0.17, T:0.29
Consensus pattern (65 bp):
TTCGAGTCTCAGATCTATACAACGCACTACAGACTGCATCAAATGTGATCGAATCCTTCCCATGG
Found at i:16263332 original size:18 final size:18
Alignment explanation
Indices: 16263309--16263365 Score: 96
Period size: 18 Copynumber: 3.2 Consensus size: 18
16263299 CCCAACTACT
*
16263309 GTATACGTGAACAGTACC
1 GTATACGTGAATAGTACC
*
16263327 GTATACGTGAATAGTGCC
1 GTATACGTGAATAGTACC
16263345 GTATACGTGAATAGTACC
1 GTATACGTGAATAGTACC
16263363 GTA
1 GTA
16263366 AACGGTCGTA
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 36 1.00
ACGTcount: A:0.32, C:0.18, G:0.25, T:0.26
Consensus pattern (18 bp):
GTATACGTGAATAGTACC
Found at i:16266576 original size:30 final size:31
Alignment explanation
Indices: 16266527--16266586 Score: 95
Period size: 30 Copynumber: 2.0 Consensus size: 31
16266517 TTTTGTTTAA
*
16266527 TTTGGTACCTAAACTTGACACTTTTTCTTAT
1 TTTGGTACCTAAACTTGACACTTTCTCTTAT
*
16266558 TTTGGTA-CTAATCTTGACACTTTCTCTTA
1 TTTGGTACCTAAACTTGACACTTTCTCTTA
16266587 AATTGTTACT
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
30 20 0.74
31 7 0.26
ACGTcount: A:0.22, C:0.20, G:0.10, T:0.48
Consensus pattern (31 bp):
TTTGGTACCTAAACTTGACACTTTCTCTTAT
Found at i:16267179 original size:60 final size:60
Alignment explanation
Indices: 16267063--16267177 Score: 162
Period size: 59 Copynumber: 1.9 Consensus size: 60
16267053 AGATATAAAA
* * * *
16267063 TTTAGGCACTAAATTAGGAAAAAATGTCAAGTTCATGTACCAAATTGGGTCCAAAAAGGG
1 TTTAGGCACCAAATTAGGAAAAAATATCAAGTTCAAGTACCAAATTGGGTCAAAAAAGGG
* *
16267123 TTTAGGTACCAAATTAGG-AAAAGTATCAAGTTCAAGTACCAAATTGGG-CAAAAAA
1 TTTAGGCACCAAATTAGGAAAAAATATCAAGTTCAAGTACCAAATTGGGTCAAAAAA
16267178 AAAAGAGTTT
Statistics
Matches: 49, Mismatches: 6, Indels: 2
0.86 0.11 0.04
Matches are distributed among these distances:
58 6 0.12
59 27 0.55
60 16 0.33
ACGTcount: A:0.43, C:0.13, G:0.20, T:0.24
Consensus pattern (60 bp):
TTTAGGCACCAAATTAGGAAAAAATATCAAGTTCAAGTACCAAATTGGGTCAAAAAAGGG
Found at i:16277055 original size:5 final size:5
Alignment explanation
Indices: 16277045--16277071 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
16277035 CTTAGCTAGA
16277045 ATAAT ATAAT ATAAT ATAAT ATAAT AT
1 ATAAT ATAAT ATAAT ATAAT ATAAT AT
16277072 TATTAGGATA
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:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (5 bp):
ATAAT
Found at i:16277466 original size:60 final size:58
Alignment explanation
Indices: 16277376--16277492 Score: 216
Period size: 60 Copynumber: 2.0 Consensus size: 58
16277366 AATATTCTTC
16277376 TTTTTTTTTTTTTTTTTAAAATTACTGTCCATAGTCGTGTTGCAAAGTTGTGGCTGAT
1 TTTTTTTTTTTTTTTTTAAAATTACTGTCCATAGTCGTGTTGCAAAGTTGTGGCTGAT
16277434 TTTTTTTTTTTTTTTTGTCAAAATTACTGTCCATAGTCGTGTTGCAAAGTTGTGGCTGA
1 TTTTTTTTTTTTTTTT-T-AAAATTACTGTCCATAGTCGTGTTGCAAAGTTGTGGCTGA
16277493 CTAGTGTAGT
Statistics
Matches: 57, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
58 16 0.28
59 1 0.02
60 40 0.70
ACGTcount: A:0.19, C:0.11, G:0.18, T:0.52
Consensus pattern (58 bp):
TTTTTTTTTTTTTTTTTAAAATTACTGTCCATAGTCGTGTTGCAAAGTTGTGGCTGAT
Found at i:16278221 original size:12 final size:12
Alignment explanation
Indices: 16278204--16278228 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
16278194 GGTGTTCATT
16278204 CGGTTAACCGAC
1 CGGTTAACCGAC
16278216 CGGTTAACCGAC
1 CGGTTAACCGAC
16278228 C
1 C
16278229 CGAAATTACT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.24, C:0.36, G:0.24, T:0.16
Consensus pattern (12 bp):
CGGTTAACCGAC
Found at i:16278402 original size:9 final size:9
Alignment explanation
Indices: 16278388--16278441 Score: 65
Period size: 9 Copynumber: 5.9 Consensus size: 9
16278378 TTTGGTTAAA
16278388 AATTACCCG
1 AATTACCCG
16278397 AATTACCCG
1 AATTACCCG
*
16278406 AATTAACCG
1 AATTACCCG
16278415 AATTA-CCG
1 AATTACCCG
*
16278423 AAAAATACCCG
1 --AATTACCCG
16278434 AATTACCC
1 AATTACCC
16278442 AAAATTTTTT
Statistics
Matches: 39, Mismatches: 3, Indels: 6
0.81 0.06 0.12
Matches are distributed among these distances:
8 3 0.08
9 29 0.74
10 4 0.10
11 3 0.08
ACGTcount: A:0.41, C:0.30, G:0.09, T:0.20
Consensus pattern (9 bp):
AATTACCCG
Found at i:16278604 original size:13 final size:13
Alignment explanation
Indices: 16278586--16278615 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
16278576 TTTTAGTTTT
16278586 ATTGGGTTGGGTA
1 ATTGGGTTGGGTA
16278599 ATTGGGTTGGGTA
1 ATTGGGTTGGGTA
16278612 ATTG
1 ATTG
16278616 AGTTTGGGCT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.17, C:0.00, G:0.43, T:0.40
Consensus pattern (13 bp):
ATTGGGTTGGGTA
Found at i:16284166 original size:79 final size:81
Alignment explanation
Indices: 16284030--16284214 Score: 236
Period size: 79 Copynumber: 2.3 Consensus size: 81
16284020 TCGAATGATG
*
16284030 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
16284094 TGTGCGAGATACTA-A
66 TGTGCGAGATACTATA
* * * **
16284109 TTCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCA
*
16284171 TTTGTGCGAGTTACTATA
64 TTTGTGCGAGATACTATA
* *
16284189 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
16284215 AACGAGTAGC
Statistics
Matches: 92, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
78 1 0.01
79 58 0.63
80 33 0.36
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
TGTGCGAGATACTATA
Found at i:16284228 original size:40 final size:40
Alignment explanation
Indices: 16284031--16284214 Score: 216
Period size: 40 Copynumber: 4.6 Consensus size: 40
16284021 CGAATGATGT
* * * *
16284031 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAA
* * *
16284071 CCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTA-ATT
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATA-A
16284111 CCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTA-AA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
16284149 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
16284190 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
16284215 AACGAGTAGC
Statistics
Matches: 126, Mismatches: 11, Indels: 14
0.83 0.07 0.09
Matches are distributed among these distances:
39 35 0.28
40 81 0.64
41 10 0.08
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
Found at i:16284236 original size:79 final size:79
Alignment explanation
Indices: 16284083--16284237 Score: 208
Period size: 79 Copynumber: 2.0 Consensus size: 79
16284073 GGACTAAGAT
* **
16284083 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
16284148 ATCCGGGTTAAGTC
66 ATCCGGGTTAAGTC
* *
16284162 CCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCATTTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTTGAACGAGTTA-C
*
16284225 TATATCC-GGTTAA
63 TAAATCCGGGTTAA
16284238 ATTCTGAAGG
Statistics
Matches: 67, Mismatches: 6, Indels: 6
0.85 0.08 0.08
Matches are distributed among these distances:
78 2 0.03
79 40 0.60
80 25 0.37
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.26
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
ATCCGGGTTAAGTC
Found at i:16291188 original size:39 final size:39
Alignment explanation
Indices: 16291144--16291497 Score: 573
Period size: 39 Copynumber: 9.1 Consensus size: 39
16291134 ATGCAAGACA
*
16291144 CTGGAAATGTATCCGGGCTAAAGTCCCGTAGGCTTCGTG
1 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
* * *
16291183 CTGGAAATATATCCGGGCCAAAGTCCCACAGGCTTCGTG
1 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
16291222 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
1 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
* * *
16291261 CTGGAAATATATCCGGGCCAAAGTCCCACAGGCTTCGTG
1 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
16291300 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
1 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
* * *
16291339 CTGGAAATATATCCGTGCCAAAGTCCCGCAGGCTTCGTG
1 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
16291378 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
1 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
* *
16291417 CTGGAAATGTATCCGGGCCAAAGTCCCGCAGGCTTCTTG
1 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
* * *
16291456 CTGGAAATGTATCCAGGTTAAAGTCCCGCAGGCTTTGTG
1 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
16291495 CTG
1 CTG
16291498 ATAATATAAT
Statistics
Matches: 289, Mismatches: 26, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
39 289 1.00
ACGTcount: A:0.22, C:0.26, G:0.29, T:0.23
Consensus pattern (39 bp):
CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
Found at i:16292291 original size:13 final size:13
Alignment explanation
Indices: 16292273--16292298 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
16292263 GATTATAAGA
16292273 TAAAATTTATATT
1 TAAAATTTATATT
16292286 TAAAATTTATATT
1 TAAAATTTATATT
16292299 CTTAGACTCC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (13 bp):
TAAAATTTATATT
Found at i:16295442 original size:13 final size:13
Alignment explanation
Indices: 16295417--16295445 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
16295407 TATGAGTTTT
16295417 ATGTGAAGTAAAA
1 ATGTGAAGTAAAA
16295430 ATGT-AAGTAAAA
1 ATGTGAAGTAAAA
16295442 ATGT
1 ATGT
16295446 CTGAATTGGT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 12 0.75
13 4 0.25
ACGTcount: A:0.52, C:0.00, G:0.21, T:0.28
Consensus pattern (13 bp):
ATGTGAAGTAAAA
Found at i:16295908 original size:8 final size:8
Alignment explanation
Indices: 16295895--16295929 Score: 70
Period size: 8 Copynumber: 4.4 Consensus size: 8
16295885 ATATTTGACT
16295895 TGTGTGAA
1 TGTGTGAA
16295903 TGTGTGAA
1 TGTGTGAA
16295911 TGTGTGAA
1 TGTGTGAA
16295919 TGTGTGAA
1 TGTGTGAA
16295927 TGT
1 TGT
16295930 TCAGAATTGT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 27 1.00
ACGTcount: A:0.23, C:0.00, G:0.37, T:0.40
Consensus pattern (8 bp):
TGTGTGAA
Found at i:16307006 original size:25 final size:25
Alignment explanation
Indices: 16306978--16307026 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
16306968 TTATAATATG
* **
16306978 AAAAATAACTATTTTGCCCCTAGGT
1 AAAAATAACCATTTTAACCCTAGGT
*
16307003 AAAAATGACCATTTTAACCCTAGG
1 AAAAATAACCATTTTAACCCTAGG
16307027 GTTTGATTAT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.39, C:0.20, G:0.12, T:0.29
Consensus pattern (25 bp):
AAAAATAACCATTTTAACCCTAGGT
Found at i:16307088 original size:21 final size:21
Alignment explanation
Indices: 16307063--16307123 Score: 79
Period size: 21 Copynumber: 2.9 Consensus size: 21
16307053 ATATTTTTAT
*
16307063 ACATGATATGGCATGGTATGC
1 ACATGATATGGCATGATATGC
**
16307084 ACATGATATGTTATGATATGC
1 ACATGATATGGCATGATATGC
16307105 ACATGATAT-GCTATGATAT
1 ACATGATATGGC-ATGATAT
16307124 ACTCATTTTA
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
21 34 1.00
ACGTcount: A:0.33, C:0.11, G:0.21, T:0.34
Consensus pattern (21 bp):
ACATGATATGGCATGATATGC
Found at i:16307093 original size:11 final size:11
Alignment explanation
Indices: 16307063--16307115 Score: 56
Period size: 11 Copynumber: 5.0 Consensus size: 11
16307053 ATATTTTTAT
16307063 ACATGATATG-
1 ACATGATATGC
* *
16307073 GCATGGTATGC
1 ACATGATATGC
16307084 ACATGATATG-
1 ACATGATATGC
**
16307094 TTATGATATGC
1 ACATGATATGC
16307105 ACATGATATGC
1 ACATGATATGC
16307116 TATGATATAC
Statistics
Matches: 33, Mismatches: 8, Indels: 3
0.75 0.18 0.07
Matches are distributed among these distances:
10 16 0.48
11 17 0.52
ACGTcount: A:0.32, C:0.13, G:0.23, T:0.32
Consensus pattern (11 bp):
ACATGATATGC
Found at i:16314455 original size:25 final size:25
Alignment explanation
Indices: 16314427--16314476 Score: 82
Period size: 25 Copynumber: 2.0 Consensus size: 25
16314417 TCTTATAATA
* *
16314427 TAAAAATGACTATTTTGCCCCTAGG
1 TAAAAATGACCATTTTACCCCTAGG
16314452 TAAAAATGACCATTTTACCCCTAGG
1 TAAAAATGACCATTTTACCCCTAGG
16314477 GTTTGATTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.34, C:0.22, G:0.14, T:0.30
Consensus pattern (25 bp):
TAAAAATGACCATTTTACCCCTAGG
Done.